Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 132 of 276
Found at i:42734655 original size:24 final size:24
Alignment explanation
Indices: 42734623--42734669 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
42734613 GTATTGTTAT
*
42734623 CCCTGTTTAGAATACTTTAGTTTA
1 CCCTATTTAGAATACTTTAGTTTA
42734647 CCCTATTTAGAATACTTTAGTTT
1 CCCTATTTAGAATACTTTAGTTT
42734670 GCCAATTACA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.26, C:0.17, G:0.11, T:0.47
Consensus pattern (24 bp):
CCCTATTTAGAATACTTTAGTTTA
Found at i:42734777 original size:27 final size:27
Alignment explanation
Indices: 42734719--42734802 Score: 105
Period size: 27 Copynumber: 3.1 Consensus size: 27
42734709 AGTACCTTCA
* * * *
42734719 ATTTATAGAATCACTGTTTTACCCTTG
1 ATTTACAGAATTACTATTTTACCCTCG
*
42734746 CTTTACAGAATTACTATTTTACCCTCG
1 ATTTACAGAATTACTATTTTACCCTCG
* *
42734773 ATTTACAAAATTACCATTTTACCCTCG
1 ATTTACAGAATTACTATTTTACCCTCG
42734800 ATT
1 ATT
42734803 GTGAAATTAC
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.29, C:0.23, G:0.07, T:0.42
Consensus pattern (27 bp):
ATTTACAGAATTACTATTTTACCCTCG
Found at i:42734845 original size:27 final size:26
Alignment explanation
Indices: 42734801--42735034 Score: 234
Period size: 27 Copynumber: 8.6 Consensus size: 26
42734791 TTACCCTCGA
* * *
42734801 TTGTGAAATTACTAAAATACGCCTAT
1 TTGTAAAATTACCAAAATACCCCTAT
* *
42734827 AGTGTAGAATTACCAAAATACCCCTGAT
1 -TTGTAAAATTACCAAAATACCCCT-AT
* *
42734855 TTGTGAAATTACCAAAATACCCCTCGAC
1 TTGTAAAATTACCAAAATACCCCT--AT
*
42734883 TTGTAAAATTACCAAAATACCCTTAGT
1 TTGTAAAATTACCAAAATACCCCTA-T
**
42734910 TTACAAAATTACCAAAATACCCCTAGT
1 TTGTAAAATTACCAAAATACCCCTA-T
42734937 TTGTAAAATTACCAAAATACCCCTGAT
1 TTGTAAAATTACCAAAATACCCCT-AT
* *
42734964 TTGTGAAATTACCAAAATACCCTCTGT
1 TTGTAAAATTACCAAAATACCC-CTAT
* ** *
42734991 TTGCAAAATTACTGAAATACCCTCGAT
1 TTGTAAAATTACCAAAATACCC-CTAT
42735018 TTGTAAAAATTACCAAA
1 TTGT-AAAATTACCAAA
42735035 GTATCCTGGA
Statistics
Matches: 173, Mismatches: 28, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
26 1 0.01
27 133 0.77
28 39 0.23
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.29
Consensus pattern (26 bp):
TTGTAAAATTACCAAAATACCCCTAT
Found at i:42735027 original size:109 final size:109
Alignment explanation
Indices: 42734767--42735034 Score: 314
Period size: 109 Copynumber: 2.5 Consensus size: 109
42734757 TACTATTTTA
* * *** * * *
42734767 CCCTCGATTTACAAAATTACCATTTTACCCTCGATTGT-GAAATTACTAAAATACGCCTATAGTG
1 CCCTCGACTTGCAAAATTACCAAAATACCCTCGATTGTAAAAATTACCAAAATACCCCTATAGTG
*
42734831 TAGAATTACCAAAATACCCCTGATTTGTGAAATTACCAAAATAC
66 TAAAATTACCAAAATACCCCTGATTTGTGAAATTACCAAAATAC
* *
42734875 CCCTCGACTTGTAAAATTACCAAAATACCCT-TAGTT-TACAAAATTACCAAAATACCCCTAGT-
1 CCCTCGACTTGCAAAATTACCAAAATACCCTCGA-TTGTA-AAAATTACCAAAATACCCCTA-TA
*
42734937 TTGTAAAATTACCAAAATACCCCTGATTTGTGAAATTACCAAAATA-
63 GTGTAAAATTACCAAAATACCCCTGATTTGTGAAATTACCAAAATAC
* **
42734983 CCCTCTG-TTTGCAAAATTACTGAAATACCCTCGATTTGTAAAAATTACCAAA
1 CCCTC-GACTTGCAAAATTACCAAAATACCCTCGA-TTGTAAAAATTACCAAA
42735035 GTATCCTGGA
Statistics
Matches: 135, Mismatches: 18, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
107 2 0.01
108 52 0.39
109 78 0.58
110 3 0.02
ACGTcount: A:0.38, C:0.23, G:0.09, T:0.30
Consensus pattern (109 bp):
CCCTCGACTTGCAAAATTACCAAAATACCCTCGATTGTAAAAATTACCAAAATACCCCTATAGTG
TAAAATTACCAAAATACCCCTGATTTGTGAAATTACCAAAATAC
Found at i:42735047 original size:28 final size:26
Alignment explanation
Indices: 42734765--42735034 Score: 215
Period size: 27 Copynumber: 10.0 Consensus size: 26
42734755 ATTACTATTT
** ***
42734765 TACCCTCGATTTACAAAATTACCATTT
1 TACCCT-GATTTGTAAAATTACCAAAA
* *
42734792 TACCCTCGA-TTGTGAAATTACTAAAA
1 TACCCT-GATTTGTAAAATTACCAAAA
* *
42734818 TACGCCT-ATAGTGTAGAATTACCAAAA
1 TAC-CCTGAT-TTGTAAAATTACCAAAA
*
42734845 TACCCCTGATTTGTGAAATTACCAAAA
1 TA-CCCTGATTTGTAAAATTACCAAAA
*
42734872 TACCCCTCGACTTGTAAAATTACCAAAA
1 TA-CCCT-GATTTGTAAAATTACCAAAA
* **
42734900 TACCCTTAGTTTACAAAATTACCAAAA
1 TACCCTGA-TTTGTAAAATTACCAAAA
42734927 TACCCCT-AGTTTGTAAAATTACCAAAA
1 TA-CCCTGA-TTTGTAAAATTACCAAAA
*
42734954 TACCCCTGATTTGTGAAATTACCAAAA
1 TA-CCCTGATTTGTAAAATTACCAAAA
* **
42734981 TACCCTCTG-TTTGCAAAATTACTGAAA
1 TA-CC-CTGATTTGTAAAATTACCAAAA
42735008 TACCCTCGATTTGTAAAAATTACCAAA
1 TACCCT-GATTTGT-AAAATTACCAAA
42735035 GTATCCTGGA
Statistics
Matches: 200, Mismatches: 30, Indels: 25
0.78 0.12 0.10
Matches are distributed among these distances:
25 3 0.01
26 17 0.09
27 139 0.69
28 41 0.20
ACGTcount: A:0.39, C:0.23, G:0.09, T:0.30
Consensus pattern (26 bp):
TACCCTGATTTGTAAAATTACCAAAA
Found at i:42735054 original size:55 final size:55
Alignment explanation
Indices: 42734842--42735094 Score: 182
Period size: 54 Copynumber: 4.7 Consensus size: 55
42734832 AGAATTACCA
* ** ** **
42734842 AAATACCC-CTGATTTGTGAAATTACCAAAATACCCCTCGACTTGTAAAATTACCA
1 AAATACCCTCTGATTTGTAAAATTACCAAAATA-CCCTCGGTTTACAAAATTACTG
** * ** **
42734897 AAATACCCT-T-AGTTTACAAAATTACCAAAATACCC-CTAGTTTGTAAAATTACCA
1 AAATACCCTCTGA-TTTGTAAAATTACCAAAATACCCTC-GGTTTACAAAATTACTG
* * *
42734951 AAATACCC-CTGATTTGTGAAATTACCAAAATACCCTCTGTTTGCAAAATTACTG
1 AAATACCCTCTGATTTGTAAAATTACCAAAATACCCTCGGTTTACAAAATTACTG
* * *
42735005 AAATACCCTC-GATTTGTAAAAATTACCAAAGTATCCT-GGATTTACAAAATTATTG
1 AAATACCCTCTGATTTGT-AAAATTACCAAAATACCCTCGG-TTTACAAAATTACTG
** *
42735060 AAATACCCT-TG-TAGGGTAGAATTACCAAAATACCC
1 AAATACCCTCTGAT-TTGTAAAATTACCAAAATACCC
42735095 CTGTAGGGTA
Statistics
Matches: 163, Mismatches: 24, Indels: 23
0.78 0.11 0.11
Matches are distributed among these distances:
53 1 0.01
54 92 0.56
55 70 0.43
ACGTcount: A:0.39, C:0.22, G:0.10, T:0.29
Consensus pattern (55 bp):
AAATACCCTCTGATTTGTAAAATTACCAAAATACCCTCGGTTTACAAAATTACTG
Found at i:42735082 original size:27 final size:27
Alignment explanation
Indices: 42735059--42735220 Score: 207
Period size: 27 Copynumber: 6.0 Consensus size: 27
42735049 CAAAATTATT
*
42735059 GAAATACCCTTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
42735086 AAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
*
42735113 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
42735140 GAAATACCCTTGCAGGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
42735167 GAAATACCCCTGTAGGGTAAAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * * * *
42735194 GAGATACCCTTATGGGGTAAAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
42735221 ATTTTGTCCC
Statistics
Matches: 119, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 119 1.00
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.24
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTACC
Found at i:42735212 original size:81 final size:81
Alignment explanation
Indices: 42735050--42735219 Score: 241
Period size: 81 Copynumber: 2.1 Consensus size: 81
42735040 CTGGATTTAC
* * * * *
42735050 AAAATTATTGAAATACCCTTGTAGGGTAGAATTACCAAAATACCCCTGTAGGGTAGAATTACTGA
1 AAAATTACTGAAATACCCTTGCAGGGTAGAAATACCAAAATACCCCTGTAGGGTAAAATTACCGA
*
42735115 AATACCCCTGTAGGGT
66 AATACCCCTATAGGGT
* *
42735131 AGAATTACTGAAATACCCTTGCAGGGTAGAAATACCGAAATACCCCTGTAGGGTAAAATTACCGA
1 AAAATTACTGAAATACCCTTGCAGGGTAGAAATACCAAAATACCCCTGTAGGGTAAAATTACCGA
* * *
42735196 GATACCCTTATGGGGT
66 AATACCCCTATAGGGT
42735212 AAAATTAC
1 AAAATTAC
42735220 CATTTTGTCC
Statistics
Matches: 77, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
81 77 1.00
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.25
Consensus pattern (81 bp):
AAAATTACTGAAATACCCTTGCAGGGTAGAAATACCAAAATACCCCTGTAGGGTAAAATTACCGA
AATACCCCTATAGGGT
Found at i:42737034 original size:27 final size:27
Alignment explanation
Indices: 42737004--42737095 Score: 121
Period size: 27 Copynumber: 3.4 Consensus size: 27
42736994 ATTACCAAAG
* *
42737004 TACCCTCAATTTACAAAATCACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* *
42737031 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* *
42737058 TACCATCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
*
42737085 CACCCTCGATT
1 TACCCTCGATT
42737096 GTGAAATTAC
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 55 1.00
ACGTcount: A:0.29, C:0.25, G:0.08, T:0.38
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTGTTT
Found at i:42737117 original size:27 final size:27
Alignment explanation
Indices: 42737094--42737304 Score: 105
Period size: 27 Copynumber: 7.8 Consensus size: 27
42737084 TCACCCTCGA
*
42737094 TTGTGAAATTACTGAAATACCCCT-A-
1 TTGTGAAATTACTAAAATACCCCTGAC
* * * *
42737119 TAGGGTAGAATTACCAAAATACCCCTGAT
1 TTGTG-A-AATTACTAAAATACCCCTGAC
42737148 TTGTGAAATTACTAAAATA-CCCTCGAC
1 TTGTGAAATTACTAAAATACCCCT-GAC
* * *
42737175 TTGTAAAATTACTAAAATA-CCCTTAG
1 TTGTGAAATTACTAAAATACCCCTGAC
* * * **
42737201 TT-TACAAAATTACCAAAACACCCCTGGT
1 TTGT--GAAATTACTAAAATACCCCTGAC
* * * * *
42737229 TTGTAAAATTACCAAAAGACACCTGAT
1 TTGTGAAATTACTAAAATACCCCTGAC
* * *
42737256 TTGTGAAATTAAC-GAAATA-CCCTTAG
1 TTGTGAAATT-ACTAAAATACCCCTGAC
42737282 TT-TGCAAAATTACTAAAATACCC
1 TTGTG--AAATTACTAAAATACCC
42737305 TCGATTTGTA
Statistics
Matches: 146, Mismatches: 26, Indels: 25
0.74 0.13 0.13
Matches are distributed among these distances:
25 6 0.04
26 16 0.11
27 108 0.74
28 12 0.08
29 4 0.03
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.29
Consensus pattern (27 bp):
TTGTGAAATTACTAAAATACCCCTGAC
Found at i:42737305 original size:27 final size:27
Alignment explanation
Indices: 42737127--42737326 Score: 156
Period size: 27 Copynumber: 7.4 Consensus size: 27
42737117 TATAGGGTAG
* *
42737127 AATTACCAAAATACCCCT-GATTTGTGA
1 AATTACCAAAATACCCTTAG-TTTGTAA
* * *
42737154 AATTACTAAAATACCC-TCGACTTGTAA
1 AATTACCAAAATACCCTTAG-TTTGTAA
* **
42737181 AATTACTAAAATACCCTTAGTTTACAA
1 AATTACCAAAATACCCTTAGTTTGTAA
* * *
42737208 AATTACCAAAACACCCCTGGTTTGTAA
1 AATTACCAAAATACCCTTAGTTTGTAA
* * *
42737235 AATTACCAAAAGACACCTGA-TTTGTGA
1 AATTACCAAAATAC-CCTTAGTTTGTAA
* * *
42737262 AATTAACGAAATACCCTTAGTTTGCAA
1 AATTACCAAAATACCCTTAGTTTGTAA
* *
42737289 AATTACTAAAATACCC-TCGATTTGTAA
1 AATTACCAAAATACCCTTAG-TTTGTAA
42737316 ATATTACCAAA
1 A-ATTACCAAA
42737327 GTATCCTGAA
Statistics
Matches: 137, Mismatches: 30, Indels: 11
0.77 0.17 0.06
Matches are distributed among these distances:
26 7 0.05
27 118 0.86
28 12 0.09
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.29
Consensus pattern (27 bp):
AATTACCAAAATACCCTTAGTTTGTAA
Found at i:42737335 original size:81 final size:80
Alignment explanation
Indices: 42737127--42737335 Score: 235
Period size: 81 Copynumber: 2.6 Consensus size: 80
42737117 TATAGGGTAG
* * * *
42737127 AATTACCAAAATACCCCTGATTTGTGAAATTACTAAAATACCCTCGACTTGTAAAATTACTAAAA
1 AATTACCAAAATACCCCTGATTTGTAAAATTACCAAAGTAACCT-GACTTGTAAAATTACTAAAA
42737192 TACCCTTAGTTTACAA
65 TACCCTTAGTTTACAA
* * * * *
42737208 AATTACCAAAACACCCCTGGTTTGTAAAATTACCAAAAG-ACACCTGATTTGTGAAATTAAC-GA
1 AATTACCAAAATACCCCTGATTTGTAAAATTACC-AAAGTA-ACCTGACTTGTAAAATT-ACTAA
*
42737271 AATACCCTTAGTTTGCAA
63 AATACCCTTAGTTTACAA
* *
42737289 AATTACTAAAATA-CCCTCGATTTGTAAATATTACCAAAGTATCCTGA
1 AATTACCAAAATACCCCT-GATTTGTAAA-ATTACCAAAGTAACCTGA
42737336 ATTTACAGAA
Statistics
Matches: 108, Mismatches: 14, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
80 4 0.04
81 89 0.82
82 15 0.14
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.30
Consensus pattern (80 bp):
AATTACCAAAATACCCCTGATTTGTAAAATTACCAAAGTAACCTGACTTGTAAAATTACTAAAAT
ACCCTTAGTTTACAA
Found at i:42737401 original size:27 final size:27
Alignment explanation
Indices: 42737378--42737458 Score: 117
Period size: 27 Copynumber: 3.0 Consensus size: 27
42737368 CAAAATTATT
42737378 GAAATACCCTTGTAGGGTAGAATTACC
1 GAAATACCCTTGTAGGGTAGAATTACC
* *
42737405 GAAATACCCCTATAGGGTAGAATTACC
1 GAAATACCCTTGTAGGGTAGAATTACC
* * *
42737432 GAGATACCCTTGTGGGGTAAAATTACC
1 GAAATACCCTTGTAGGGTAGAATTACC
42737459 ATTTTGCCCC
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (27 bp):
GAAATACCCTTGTAGGGTAGAATTACC
Found at i:42739924 original size:27 final size:27
Alignment explanation
Indices: 42739894--42739985 Score: 112
Period size: 27 Copynumber: 3.4 Consensus size: 27
42739884 ATTACCAAAG
* * *
42739894 TACCCTCAATTTATAGAATCACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
42739921 TACCCTTGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
42739948 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
42739975 TACCTTCGATT
1 TACCCTCGATT
42739986 GTGAAATTAC
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 55 1.00
ACGTcount: A:0.28, C:0.23, G:0.08, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:42740046 original size:27 final size:27
Alignment explanation
Indices: 42740016--42740215 Score: 212
Period size: 27 Copynumber: 7.4 Consensus size: 27
42740006 TATAGGGTAG
42740016 AATTACCAAAATACCCCTGATTTGTAA
1 AATTACCAAAATACCCCTGATTTGTAA
*
42740043 AATTACTC-AAATA-CCCTCGACTTGTAA
1 AATTAC-CAAAATACCCCT-GATTTGTAA
* * **
42740070 AATTACCAAAATACCCTTGGTTTACAA
1 AATTACCAAAATACCCCTGATTTGTAA
*
42740097 AATTACCAAAATACCCCT-AGTTCGTAA
1 AATTACCAAAATACCCCTGA-TTTGTAA
*
42740124 AATTACCAAAATACCCCTGATTTGTGA
1 AATTACCAAAATACCCCTGATTTGTAA
* *
42740151 AATTACCAAAATA-CCCTCAGTTTGCAA
1 AATTACCAAAATACCCCTGA-TTTGTAA
**
42740178 AATTACTGAAATA-CCCTCGATTTGTAAA
1 AATTACCAAAATACCCCT-GATTTGT-AA
42740206 AATTACCAAA
1 AATTACCAAA
42740216 GTATCCTGGA
Statistics
Matches: 142, Mismatches: 22, Indels: 17
0.78 0.12 0.09
Matches are distributed among these distances:
26 10 0.07
27 116 0.82
28 16 0.11
ACGTcount: A:0.41, C:0.23, G:0.08, T:0.28
Consensus pattern (27 bp):
AATTACCAAAATACCCCTGATTTGTAA
Found at i:42740113 original size:81 final size:80
Alignment explanation
Indices: 42740016--42740215 Score: 253
Period size: 81 Copynumber: 2.5 Consensus size: 80
42740006 TATAGGGTAG
42740016 AATTACCAAAATACCCCTGATTTGTAAAATTACTCAAATA-CCCTCGACTTGTAAAATTACCAAA
1 AATTACCAAAATACCCCTGATTTGTAAAATTAC-CAAATACCCCT-GACTTGTAAAATTACCAAA
**
42740080 ATACCCTTGGTTTACAA
64 ATACCCTCAGTTTACAA
* * *
42740097 AATTACCAAAATACCCCT-AGTTCGTAAAATTACCAAAATACCCCTGATTTGTGAAATTACCAAA
1 AATTACCAAAATACCCCTGA-TTTGTAAAATTACC-AAATACCCCTGACTTGTAAAATTACCAAA
*
42740161 ATACCCTCAGTTTGCAA
64 ATACCCTCAGTTTACAA
**
42740178 AATTACTGAAATA-CCCTCGATTTGTAAAAATTACCAAA
1 AATTACCAAAATACCCCT-GATTTGT-AAAATTACCAAA
42740216 GTATCCTGGA
Statistics
Matches: 104, Mismatches: 9, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
80 6 0.06
81 84 0.81
82 14 0.13
ACGTcount: A:0.41, C:0.23, G:0.08, T:0.28
Consensus pattern (80 bp):
AATTACCAAAATACCCCTGATTTGTAAAATTACCAAATACCCCTGACTTGTAAAATTACCAAAAT
ACCCTCAGTTTACAA
Found at i:42740180 original size:54 final size:54
Alignment explanation
Indices: 42740016--42740215 Score: 237
Period size: 54 Copynumber: 3.7 Consensus size: 54
42740006 TATAGGGTAG
*
42740016 AATTACCAAAATACCCCTGATTTGTAAAATTACTC-AAATACCCTC-GACTTGTAA
1 AATTACCAAAATACCCCTGATTTGTAAAATTAC-CAAAATACCCTCAG-TTTGTAA
* * ** *
42740070 AATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCC-CTAGTTCGTAA
1 AATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCTC-AGTTTGTAA
* *
42740124 AATTACCAAAATACCCCTGATTTGTGAAATTACCAAAATACCCTCAGTTTGCAA
1 AATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCTCAGTTTGTAA
**
42740178 AATTACTGAAATA-CCCTCGATTTGTAAAAATTACCAAA
1 AATTACCAAAATACCCCT-GATTTGT-AAAATTACCAAA
42740216 GTATCCTGGA
Statistics
Matches: 124, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
53 6 0.05
54 105 0.85
55 13 0.10
ACGTcount: A:0.41, C:0.23, G:0.08, T:0.28
Consensus pattern (54 bp):
AATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCTCAGTTTGTAA
Found at i:42740274 original size:27 final size:28
Alignment explanation
Indices: 42740016--42740276 Score: 127
Period size: 27 Copynumber: 9.6 Consensus size: 28
42740006 TATAGGGTAG
* **
42740016 AATTACCAAAATACCC-CTGA-TTTGTAA
1 AATTACCGAAATACCCTC-GAGTTTACAA
*
42740043 AATTACTC-AAATACCCTCGACTTGT--AA
1 AATTAC-CGAAATACCCTCGAGTT-TACAA
* *
42740070 AATTACCAAAATACCCTTG-GTTTACAA
1 AATTACCGAAATACCCTCGAGTTTACAA
* * ***
42740097 AATTACCAAAATACCC-CTAGTTCGTAA
1 AATTACCGAAATACCCTCGAGTTTACAA
* ***
42740124 AATTACCAAAATACCC-CTGA-TTTGTGA
1 AATTACCGAAATACCCTC-GAGTTTACAA
* *
42740151 AATTACCAAAATACCCTC-AGTTTGCAA
1 AATTACCGAAATACCCTCGAGTTTACAA
* *
42740178 AATTACTGAAATACCCTCGATTTGTA-AA
1 AATTACCGAAATACCCTCGAGTT-TACAA
* * *
42740206 AATTACC-AAAGTATCCTGGA-TTTACAG
1 AATTACCGAAA-TACCCTCGAGTTTACAA
***
42740233 AATTACCGTTTTACCCTCGA-TTTACAA
1 AATTACCGAAATACCCTCGAGTTTACAA
**
42740260 AATTATTGAAATACCCT
1 AATTACCGAAATACCCT
42740277 TGTAGGATAG
Statistics
Matches: 187, Mismatches: 31, Indels: 32
0.75 0.12 0.13
Matches are distributed among these distances:
25 1 0.01
26 6 0.03
27 154 0.82
28 24 0.13
29 2 0.01
ACGTcount: A:0.38, C:0.23, G:0.09, T:0.30
Consensus pattern (28 bp):
AATTACCGAAATACCCTCGAGTTTACAA
Found at i:42740290 original size:27 final size:27
Alignment explanation
Indices: 42740267--42740347 Score: 99
Period size: 27 Copynumber: 3.0 Consensus size: 27
42740257 CAAAATTATT
42740267 GAAATACCCTTGTAGGATAGAATTACC
1 GAAATACCCTTGTAGGATAGAATTACC
* * *
42740294 AAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCTTGTAGGATAGAATTACC
* * * *
42740321 GAGATACCCTTGTGGGGTAAAATTACC
1 GAAATACCCTTGTAGGATAGAATTACC
42740348 ATCTTGCCCC
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.25
Consensus pattern (27 bp):
GAAATACCCTTGTAGGATAGAATTACC
Found at i:42740609 original size:24 final size:24
Alignment explanation
Indices: 42740550--42740623 Score: 78
Period size: 25 Copynumber: 3.0 Consensus size: 24
42740540 GGAGGAAGTA
*
42740550 CTAAAAGGGCTTTGCCCTAGTTTAT
1 CTAAAAGGGCTTTGCCCCAG-TTAT
*
42740575 CGAAAAGGGCTTTGCCCCAGTTAT
1 CTAAAAGGGCTTTGCCCCAGTTAT
**
42740599 -TAAAAGTGGCTAGGCCTCCAGTTAT
1 CTAAAAG-GGCTTTGCC-CCAGTTAT
42740624 ATGATAAAGC
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
23 5 0.12
24 11 0.26
25 26 0.62
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.30
Consensus pattern (24 bp):
CTAAAAGGGCTTTGCCCCAGTTAT
Found at i:42743060 original size:27 final size:27
Alignment explanation
Indices: 42743030--42743113 Score: 105
Period size: 27 Copynumber: 3.1 Consensus size: 27
42743020 AGTACCTTCA
* * *
42743030 ATTTATAGAATCACTGTTTTACCCTTG
1 ATTTACAGAATCACTATTTTACCCTCG
*
42743057 ATTTACAGAATTACTATTTTACCCTCG
1 ATTTACAGAATCACTATTTTACCCTCG
* * *
42743084 ATTTACAAAATTACCATTTTACCCTCG
1 ATTTACAGAATCACTATTTTACCCTCG
42743111 ATT
1 ATT
42743114 GTGAAATTCT
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 51 1.00
ACGTcount: A:0.30, C:0.21, G:0.07, T:0.42
Consensus pattern (27 bp):
ATTTACAGAATCACTATTTTACCCTCG
Found at i:42743300 original size:27 final size:27
Alignment explanation
Indices: 42743076--42743343 Score: 208
Period size: 27 Copynumber: 10.0 Consensus size: 27
42743066 ATTACTATTT
** ***
42743076 TACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTGTAAAATTACCAAAA
* *
42743103 TACCCTCGA-TTGTGAAATT-CTAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
* ** *
42743128 TACCC-CTATAGGGTAGAATTACCAAAA
1 TACCCTCGAT-TTGTAAAATTACCAAAA
* *
42743155 TACCC-CTGATTAGTGAAATTACCAAAA
1 TACCCTC-GATTTGTAAAATTACCAAAA
* ***
42743182 TACCC-CTGATTTGTGAAATTATTGAAA
1 TACCCTC-GATTTGTAAAATTACCAAAA
* *
42743209 TACCCTCGACTTGTGAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
* * **
42743236 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
*
42743263 TACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTGTAAAATTACCAAAA
*
42743290 TACCCTC-AGTTTGTAAAATTACTAAAA
1 TACCCTCGA-TTTGTAAAATTACCAAAA
42743317 TACCCTCGATTTGTAAAAATTACCAAA
1 TACCCTCGATTTGT-AAAATTACCAAA
42743344 GTTTCCTGGA
Statistics
Matches: 193, Mismatches: 39, Indels: 17
0.78 0.16 0.07
Matches are distributed among these distances:
24 2 0.01
25 7 0.04
26 13 0.07
27 155 0.80
28 16 0.08
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.30
Consensus pattern (27 bp):
TACCCTCGATTTGTAAAATTACCAAAA
Found at i:42743439 original size:27 final size:27
Alignment explanation
Indices: 42743386--42743555 Score: 191
Period size: 27 Copynumber: 6.3 Consensus size: 27
42743376 CTCGATTTAC
**
42743386 AAAATTATTGAAATA-CCCTGTAGGGT
1 AAAATTACCGAAATACCCCTGTAGGGT
* *
42743412 AGAATTACCAAAATACCCCTGTAGGGT
1 AAAATTACCGAAATACCCCTGTAGGGT
* * *
42743439 AGAATTACTGAAATACCCCTGTAAGGT
1 AAAATTACCGAAATACCCCTGTAGGGT
* *
42743466 AAAATTACTGAAATACCCTTGTAGGGT
1 AAAATTACCGAAATACCCCTGTAGGGT
*
42743493 AGAAA-TACCGAAATACCCCTATAGGGT
1 A-AAATTACCGAAATACCCCTGTAGGGT
* * * *
42743520 AAAATTACCGAGATACCCTTATGGGGT
1 AAAATTACCGAAATACCCCTGTAGGGT
42743547 AAAATTACC
1 AAAATTACC
42743556 ATTTTGCCTC
Statistics
Matches: 125, Mismatches: 16, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
26 14 0.11
27 108 0.86
28 3 0.02
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.25
Consensus pattern (27 bp):
AAAATTACCGAAATACCCCTGTAGGGT
Found at i:42743526 original size:81 final size:80
Alignment explanation
Indices: 42743386--42743537 Score: 232
Period size: 81 Copynumber: 1.9 Consensus size: 80
42743376 CTCGATTTAC
* * * * *
42743386 AAAATTATTGAAATACCCTGTAGGGTAGAATTACCAAAATACCCCTGTAGGGTAGAATTACTGAA
1 AAAATTACTGAAATACCCTGTAGGGTAGAAATACCAAAATACCCCTATAGGGTAAAATTACCGAA
42743451 ATACCCCTGTAAGGT
66 ATACCCCTGTAAGGT
*
42743466 AAAATTACTGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTATAGGGTAAAATTACCGA
1 AAAATTACTGAAATACCC-TGTAGGGTAGAAATACCAAAATACCCCTATAGGGTAAAATTACCGA
*
42743531 GATACCC
65 AATACCC
42743538 TTATGGGGTA
Statistics
Matches: 64, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
80 17 0.27
81 47 0.73
ACGTcount: A:0.39, C:0.19, G:0.18, T:0.24
Consensus pattern (80 bp):
AAAATTACTGAAATACCCTGTAGGGTAGAAATACCAAAATACCCCTATAGGGTAAAATTACCGAA
ATACCCCTGTAAGGT
Found at i:42743548 original size:81 final size:80
Alignment explanation
Indices: 42743386--42743554 Score: 230
Period size: 81 Copynumber: 2.1 Consensus size: 80
42743376 CTCGATTTAC
* * * * *
42743386 AAAATTATTGAAATACCCTGTAGGGTAGAATTACCAAAATACCCCTGTAGGGTAGAATTACTGAA
1 AAAATTACTGAAATACCCTGTAGGGTAGAAATACCAAAATACCCCTATAGGGTAAAATTACCGAA
*
42743451 ATACCCCTGTAAGGT
66 ATACCCCTATAAGGT
*
42743466 AAAATTACTGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTATAGGGTAAAATTACCGA
1 AAAATTACTGAAATACCC-TGTAGGGTAGAAATACCAAAATACCCCTATAGGGTAAAATTACCGA
* * **
42743531 GATACCCTTATGGGGT
65 AATACCCCTATAAGGT
42743547 AAAATTAC
1 AAAATTAC
42743555 CATTTTGCCT
Statistics
Matches: 77, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
80 17 0.22
81 60 0.78
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.25
Consensus pattern (80 bp):
AAAATTACTGAAATACCCTGTAGGGTAGAAATACCAAAATACCCCTATAGGGTAAAATTACCGAA
ATACCCCTATAAGGT
Found at i:42751920 original size:39 final size:38
Alignment explanation
Indices: 42751849--42752006 Score: 190
Period size: 39 Copynumber: 4.1 Consensus size: 38
42751839 TGGAAATATA
* * * *
42751849 TGGAAATGTATCCGGACTAAAATCCTGTAGGCTTCGTGC
1 TGGAAATGTATCCGGGCCAAAGTCC-GCAGGCTTCGTGC
*
42751888 TGGAAATGTATCTGGGCCAAAGTCTCGCAGGCTTCGTGC
1 TGGAAATGTATCCGGGCCAAAGTC-CGCAGGCTTCGTGC
* *
42751927 TGGAAATGTATCCGGGCCAAAGTCCCGTAGGCTTCTTGC
1 TGGAAATGTATCCGGGCCAAAGT-CCGCAGGCTTCGTGC
** *
42751966 TGGAAATGTATCCGGGTTAAAGTCCTGCAGGCTTTGTGC
1 TGGAAATGTATCCGGGCCAAAGTCC-GCAGGCTTCGTGC
42752005 TG
1 TG
42752007 ATAATATAAT
Statistics
Matches: 103, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
38 2 0.02
39 99 0.96
40 2 0.02
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (38 bp):
TGGAAATGTATCCGGGCCAAAGTCCGCAGGCTTCGTGC
Found at i:42751988 original size:78 final size:78
Alignment explanation
Indices: 42751849--42752006 Score: 219
Period size: 78 Copynumber: 2.0 Consensus size: 78
42751839 TGGAAATATA
* * *
42751849 TGGAAATGTATCCGGACTAAAATCCTGTAGGCTTCGTGCTGGAAATGTATCTGGGCCAAAGT-CT
1 TGGAAATGTATCCGGACCAAAATCCCGTAGGCTTCGTGCTGGAAATGTATCCGGGCCAAAGTCCT
42751913 CGCAGGCTTCGTGC
66 -GCAGGCTTCGTGC
* * * **
42751927 TGGAAATGTATCCGGGCCAAAGTCCCGTAGGCTTCTTGCTGGAAATGTATCCGGGTTAAAGTCCT
1 TGGAAATGTATCCGGACCAAAATCCCGTAGGCTTCGTGCTGGAAATGTATCCGGGCCAAAGTCCT
*
42751992 GCAGGCTTTGTGC
66 GCAGGCTTCGTGC
42752005 TG
1 TG
42752007 ATAATATAAT
Statistics
Matches: 70, Mismatches: 9, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
78 68 0.97
79 2 0.03
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (78 bp):
TGGAAATGTATCCGGACCAAAATCCCGTAGGCTTCGTGCTGGAAATGTATCCGGGCCAAAGTCCT
GCAGGCTTCGTGC
Found at i:42764421 original size:42 final size:43
Alignment explanation
Indices: 42764375--42764458 Score: 111
Period size: 42 Copynumber: 2.0 Consensus size: 43
42764365 ATGAGATTCC
* *
42764375 GATATGTGTTTACGA-GTAAGACCCTGTC-AGGACAG-TGGCATG
1 GATATGTGGTTAC-ATGTAAGACCATGTCTAGGAC-GTTGGCATG
42764417 GATATGTGGTTACATGTAAGACCATGTCTAGGACGTTGGCAT
1 GATATGTGGTTACATGTAAGACCATGTCTAGGACGTTGGCAT
42764459 TGTACGATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
41 1 0.03
42 25 0.68
43 11 0.30
ACGTcount: A:0.26, C:0.15, G:0.30, T:0.29
Consensus pattern (43 bp):
GATATGTGGTTACATGTAAGACCATGTCTAGGACGTTGGCATG
Found at i:42767042 original size:79 final size:82
Alignment explanation
Indices: 42766931--42767115 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
42766921 GCTACTCGTT
* *
42766931 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
42766994 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
42767011 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
42767074 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
42767091 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
42767116 CATCATTCGA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:42767115 original size:40 final size:40
Alignment explanation
Indices: 42766912--42767115 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
42766902 CGGAATTTAA
** *
42766912 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
42766952 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
42766992 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
42767031 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
42767071 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
42767111 CCGGA
1 CCGGA
42767116 CATCATTCGA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:42775097 original size:79 final size:81
Alignment explanation
Indices: 42774995--42775179 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
42774985 GCTCCTCGTT
* *
42774995 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
42775058 GGATTTAGTAAC-TCGCA
64 GGATATAGTAACTTAGCA
* **
42775075 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
42775139 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
42775155 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
42775180 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:42775179 original size:40 final size:40
Alignment explanation
Indices: 42774995--42775179 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
42774985 GCTCCTCGTT
* *
42774995 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
42775035 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
42775075 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
42775114 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
42775155 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
42775180 CATCATTCAA
Statistics
Matches: 126, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.02
39 32 0.25
40 80 0.63
41 12 0.10
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:42793312 original size:27 final size:27
Alignment explanation
Indices: 42793282--42793394 Score: 145
Period size: 27 Copynumber: 4.2 Consensus size: 27
42793272 CGATTTACAA
*
42793282 AATTATTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
42793309 AATTACTCAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * * *
42793336 AATTATTGAAATATCCTTGTAGGGTAC
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
42793363 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
42793390 AATTA
1 AATTA
42793395 AATAGATACC
Statistics
Matches: 70, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 70 1.00
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:42793340 original size:54 final size:54
Alignment explanation
Indices: 42793282--42793394 Score: 165
Period size: 54 Copynumber: 2.1 Consensus size: 54
42793272 CGATTTACAA
* *
42793282 AATTATTGAAATACCCCTGTAGGGTAGAATTACTC-AAATACCCCTATAGGGTAG
1 AATTATTGAAATACCCCTGTAGGGTACAAATAC-CGAAATACCCCTATAGGGTAG
* * *
42793336 AATTATTGAAATATCCTTGTAGGGTACAAATACCGAAATACCCCTGTAGGGTAG
1 AATTATTGAAATACCCCTGTAGGGTACAAATACCGAAATACCCCTATAGGGTAG
42793390 AATTA
1 AATTA
42793395 AATAGATACC
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
53 1 0.02
54 52 0.98
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (54 bp):
AATTATTGAAATACCCCTGTAGGGTACAAATACCGAAATACCCCTATAGGGTAG
Found at i:42793403 original size:27 final size:28
Alignment explanation
Indices: 42793290--42793421 Score: 112
Period size: 27 Copynumber: 4.9 Consensus size: 28
42793280 AAAATTATTG
42793290 AAATACCCCTGTAGGGTAGAATT-ACTC
1 AAATACCCCTGTAGGGTAGAATTAACTC
* * *
42793317 AAATACCCCTATAGGGTAGAATT-ATTG
1 AAATACCCCTGTAGGGTAGAATTAACTC
* * * *
42793344 AAATATCCTTGTAGGGTACAAAT-AC-C
1 AAATACCCCTGTAGGGTAGAATTAACTC
*
42793370 GAAATACCCCTGTAGGGTAGAATTAAAT-
1 -AAATACCCCTGTAGGGTAGAATTAACTC
* * * *
42793398 AGATACCCTTGTGGGGTAAAATTA
1 AAATACCCCTGTAGGGTAGAATTA
42793422 CCATTTTGCC
Statistics
Matches: 83, Mismatches: 19, Indels: 6
0.77 0.18 0.06
Matches are distributed among these distances:
27 82 0.99
28 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.27
Consensus pattern (28 bp):
AAATACCCCTGTAGGGTAGAATTAACTC
Found at i:42793408 original size:54 final size:53
Alignment explanation
Indices: 42793282--42793419 Score: 154
Period size: 54 Copynumber: 2.6 Consensus size: 53
42793272 CGATTTACAA
* * *
42793282 AATTATTGAAATACCCCTGTAGGGTAGAATTACTCAAATACCCCTATAGGGTAG
1 AATTAATGAAATACCCTTGTAGGGTA-AAATACTCAAATACCCCTATAGGGTAG
* * *
42793336 AATTATTGAAATATCCTTGTAGGGTACAAATAC-CGAAATACCCCTGTAGGGTAG
1 AATTAATGAAATACCCTTGTAGGGTA-AAATACTC-AAATACCCCTATAGGGTAG
* *
42793390 AATTAAAT-AGATACCCTTGTGGGGTAAAAT
1 AATT-AATGAAATACCCTTGTAGGGTAAAAT
42793420 TACCATTTTG
Statistics
Matches: 73, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
53 5 0.07
54 66 0.90
55 2 0.03
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.28
Consensus pattern (53 bp):
AATTAATGAAATACCCTTGTAGGGTAAAATACTCAAATACCCCTATAGGGTAG
Found at i:42793989 original size:22 final size:22
Alignment explanation
Indices: 42793938--42793990 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
42793928 CCAATTATTT
42793938 TGATTATGGCTTTACGCCAACC
1 TGATTATGGCTTTACGCCAACC
* **
42793960 T-ACATATGGCTTTGTGCCAACC
1 TGA-TTATGGCTTTACGCCAACC
42793982 TGATTATGG
1 TGATTATGG
42793991 ACGTGTGCTG
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 1 0.04
22 23 0.92
23 1 0.04
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.34
Consensus pattern (22 bp):
TGATTATGGCTTTACGCCAACC
Found at i:42794263 original size:6 final size:6
Alignment explanation
Indices: 42794254--42794372 Score: 66
Period size: 6 Copynumber: 19.3 Consensus size: 6
42794244 TTGCATTCAC
* * * * *
42794254 ATTCTG ATTCTA ATTTTG -TTACCTG ATACTG ATTCTG GTTCTG -TCACCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT-TC-TG
* * *
42794304 ATTCTG ATTCTG ATTCTG -TCACCTG ATTCTG ATTCTA ATTCTG ATTCTC
1 ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG
*
42794353 ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG A-TTCTG AT
42794373 AATGTTTCTT
Statistics
Matches: 85, Mismatches: 17, Indels: 22
0.69 0.14 0.18
Matches are distributed among these distances:
5 5 0.06
6 68 0.80
7 9 0.11
8 3 0.04
ACGTcount: A:0.18, C:0.19, G:0.14, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:42794285 original size:25 final size:25
Alignment explanation
Indices: 42794254--42794346 Score: 132
Period size: 25 Copynumber: 3.7 Consensus size: 25
42794244 TTGCATTCAC
* *
42794254 ATTCTGATTCTAATTTTGTTACCTG
1 ATTCTGATTCTAATTCTGTCACCTG
* **
42794279 ATACTGATTCTGGTTCTGTCACCTG
1 ATTCTGATTCTAATTCTGTCACCTG
*
42794304 ATTCTGATTCTGATTCTGTCACCTG
1 ATTCTGATTCTAATTCTGTCACCTG
42794329 ATTCTGATTCTAATTCTG
1 ATTCTGATTCTAATTCTG
42794347 ATTCTCATTT
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 60 1.00
ACGTcount: A:0.18, C:0.20, G:0.15, T:0.46
Consensus pattern (25 bp):
ATTCTGATTCTAATTCTGTCACCTG
Found at i:42794931 original size:79 final size:79
Alignment explanation
Indices: 42794800--42794958 Score: 318
Period size: 79 Copynumber: 2.0 Consensus size: 79
42794790 ACATCACATA
42794800 TCCGCAATTGTTTTTAAATTAAGCTTCCGCAACTACCAAGATTTTTACAAAGTTGTTAAGAATGT
1 TCCGCAATTGTTTTTAAATTAAGCTTCCGCAACTACCAAGATTTTTACAAAGTTGTTAAGAATGT
42794865 TATTCGGCTGGGAT
66 TATTCGGCTGGGAT
42794879 TCCGCAATTGTTTTTAAATTAAGCTTCCGCAACTACCAAGATTTTTACAAAGTTGTTAAGAATGT
1 TCCGCAATTGTTTTTAAATTAAGCTTCCGCAACTACCAAGATTTTTACAAAGTTGTTAAGAATGT
42794944 TATTCGGCTGGGAT
66 TATTCGGCTGGGAT
42794958 T
1 T
42794959 TTCTAATAAG
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 80 1.00
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (79 bp):
TCCGCAATTGTTTTTAAATTAAGCTTCCGCAACTACCAAGATTTTTACAAAGTTGTTAAGAATGT
TATTCGGCTGGGAT
Found at i:42798665 original size:30 final size:30
Alignment explanation
Indices: 42798631--42798691 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
42798621 TCCTTAACTC
42798631 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
42798661 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
42798691 A
1 A
42798692 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:42805872 original size:25 final size:25
Alignment explanation
Indices: 42805843--42805892 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
42805833 CCTTATAATA
* * *
42805843 TAAAAATGACCGTTTTGCCCCTAGG
1 TAAAAATGACCATTATACCCCTAGG
42805868 TAAAAATGACCATTATACCCCTAGG
1 TAAAAATGACCATTATACCCCTAGG
42805893 GTTTATATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (25 bp):
TAAAAATGACCATTATACCCCTAGG
Found at i:42805995 original size:20 final size:20
Alignment explanation
Indices: 42805929--42805995 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
42805919 AGTTTGATAA
*
42805929 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
* *
42805949 ACATGACATGTATGACATGC
1 ACATGATATGTATGATATGC
42805969 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
42805989 ACATGAT
1 ACATGAT
42805996 GTATTTATAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.31
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:42806152 original size:49 final size:47
Alignment explanation
Indices: 42806045--42806195 Score: 212
Period size: 51 Copynumber: 3.1 Consensus size: 47
42806035 GAGGAAGTGC
* **
42806045 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGTCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAG-TTA-TGAAAAGGGCTTTGCCCCAG-TTA-TT
42806096 AAAAGGGCTTATGCCCCAGTTATGAAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATG-AAAAGGGCTT-TGCCCCAGTTATT
*
42806145 AAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATGAAAAGGGCTTTGCCCCAGTTATT
42806192 AAAA
1 AAAA
42806196 AAGGCTAGGC
Statistics
Matches: 94, Mismatches: 4, Indels: 8
0.89 0.04 0.08
Matches are distributed among these distances:
47 17 0.18
48 10 0.11
49 25 0.27
50 15 0.16
51 27 0.29
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATGAAAAGGGCTTTGCCCCAGTTATT
Found at i:42806201 original size:24 final size:24
Alignment explanation
Indices: 42806045--42806195 Score: 207
Period size: 25 Copynumber: 6.2 Consensus size: 24
42806035 GAGGAAGTGC
42806045 AAAAGGGCTTATGCCCCAGTTTATT
1 AAAAGGGCTTATGCCCCAG-TTATT
* **
42806070 GAAAAGGTCTT-TGCCCCAGTTTACCG
1 -AAAAGGGCTTATGCCCCAG-TTA-TT
*
42806096 AAAAGGGCTTATGCCCCAGTTATGA
1 AAAAGGGCTTATGCCCCAGTTAT-T
42806121 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
42806145 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
42806169 AAAAGGGCTT-TGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
42806192 AAAA
1 AAAA
42806196 AAGGCTAGGC
Statistics
Matches: 115, Mismatches: 7, Indels: 9
0.88 0.05 0.07
Matches are distributed among these distances:
23 17 0.15
24 34 0.30
25 47 0.41
26 17 0.15
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:42813874 original size:25 final size:25
Alignment explanation
Indices: 42813845--42813892 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
42813835 TTATAATATG
* * *
42813845 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
42813870 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
42813893 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:42813961 original size:20 final size:20
Alignment explanation
Indices: 42813936--42813986 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
42813926 TAAACATGGT
*
42813936 ATGTATGATATGCATATGAC
1 ATGTATGATATGCACATGAC
*
42813956 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAC
*
42813976 ATGTATTATAT
1 ATGTATGATAT
42813987 TATAAATGCA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.35, C:0.08, G:0.18, T:0.39
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:42813962 original size:15 final size:16
Alignment explanation
Indices: 42813940--42813978 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
42813930 CATGGTATGT
42813940 ATGATATGCATATG-AC
1 ATGATATG-ATATGCAC
42813956 ATG-TATGATATGCAC
1 ATGATATGATATGCAC
42813971 ATGATATG
1 ATGATATG
42813979 TATTATATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.24
15 9 0.43
16 7 0.33
ACGTcount: A:0.36, C:0.10, G:0.21, T:0.33
Consensus pattern (16 bp):
ATGATATGATATGCAC
Found at i:42814114 original size:24 final size:24
Alignment explanation
Indices: 42814031--42814175 Score: 195
Period size: 24 Copynumber: 5.9 Consensus size: 24
42814021 GAGGAAGTGC
*
42814031 AAAAGGGCTTATGCCCTAGTTTATT
1 AAAAGGGCTTATGCCCCAG-TTATT
*
42814056 GAAAAGGGCTTATGCCCCAGTTATGA
1 -AAAAGGGCTTATGCCCCAGTTAT-T
*
42814082 AAAAGGGCTTATGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
42814106 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
42814130 AAAAGGGCTT-TGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
42814153 AAAAGAGGC-TAGGCCTCCAGTTA
1 AAAAG-GGCTTATGCC-CCAGTTA
42814176 CATGATAAAG
Statistics
Matches: 109, Mismatches: 6, Indels: 9
0.88 0.05 0.07
Matches are distributed among these distances:
23 19 0.17
24 39 0.36
25 33 0.30
26 18 0.17
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:42814126 original size:49 final size:48
Alignment explanation
Indices: 42814031--42814175 Score: 204
Period size: 49 Copynumber: 3.0 Consensus size: 48
42814021 GAGGAAGTGC
42814031 AAAAGGGCTTATGCCCTAGTTTATTGAAAAGGGCTTATGCCCCAGTTATGA
1 AAAAGGGCTTATGCCCTAG-TTATT-AAAAGGGCTTATGCCCCAGTTAT-A
*
42814082 AAAAGGGCTTATGCCCTAGTTATTAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCTAGTTATTAAAAGGGCTTATGCCCCAGTTATA
* *
42814130 AAAAGGGCTT-TGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTA
1 AAAAGGGCTTATGCCCTAGTTATTAAAAG-GGCTTATGCC-CCAGTTA
42814176 CATGATAAAG
Statistics
Matches: 89, Mismatches: 3, Indels: 7
0.90 0.03 0.07
Matches are distributed among these distances:
47 22 0.25
48 20 0.22
49 23 0.26
50 5 0.06
51 19 0.21
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCTAGTTATTAAAAGGGCTTATGCCCCAGTTATA
Found at i:42815702 original size:24 final size:24
Alignment explanation
Indices: 42815649--42815815 Score: 234
Period size: 24 Copynumber: 7.0 Consensus size: 24
42815639 GCTTTATCAT
*
42815649 ATAACTGGAGGCCT-AGCCTCTTTT-
1 ATAACTGG-GGCATAAGCC-CTTTTG
* *
42815673 AGTAACTGGGGCAAAAGCCCTTTTT
1 A-TAACTGGGGCATAAGCCCTTTTG
42815698 ATAACTGGGGCATAAGCCC-TTTG
1 ATAACTGGGGCATAAGCCCTTTTG
*
42815721 ATAACTGGGGCGTAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
42815745 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
*
42815769 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTG
42815792 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
42815816 CACTTCCTCC
Statistics
Matches: 130, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
23 43 0.33
24 75 0.58
25 12 0.09
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTG
Found at i:42815750 original size:71 final size:72
Alignment explanation
Indices: 42815649--42815815 Score: 250
Period size: 71 Copynumber: 2.3 Consensus size: 72
42815639 GCTTTATCAT
* *
42815649 ATAACTGGAGGCCT-AGCCTCTTTT-AGTAACTGGGGCAAAAGCCCTTTTTATAACTGGGGCATA
1 ATAACTGG-GGCATAAGCC-CTTTTGAGTAACTGGGGCAAAAGCCCTTTTGATAACTGGGGCATA
*
42815712 AGCCCTTTG
64 AGCCCTTTA
* *
42815721 ATAACTGGGGCGTAAGCCCTTTTGA-TAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAG
1 ATAACTGGGGCATAAGCCCTTTTGAGTAACTGGGGCAAAAGCCCTTTTGATAACTGGGGCATAAG
42815785 CCCTTTA
66 CCCTTTA
42815792 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
42815816 CACTTCCTCC
Statistics
Matches: 88, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
71 75 0.85
72 13 0.15
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.29
Consensus pattern (72 bp):
ATAACTGGGGCATAAGCCCTTTTGAGTAACTGGGGCAAAAGCCCTTTTGATAACTGGGGCATAAG
CCCTTTA
Found at i:42815814 original size:47 final size:48
Alignment explanation
Indices: 42815649--42815815 Score: 234
Period size: 47 Copynumber: 3.5 Consensus size: 48
42815639 GCTTTATCAT
* * *
42815649 ATAACTGGAGGCCT-AGCCTCTTTT-AGTAACTGGGGCAAAAGCCCTTTTT
1 ATAACTGG-GGCATAAGCC-CTTTTGA-TAACTGGGGCATAAGCCCTTTTA
* *
42815698 ATAACTGGGGCATAAGCCC-TTTGATAACTGGGGCGTAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTA
42815745 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTA
42815792 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
42815816 CACTTCCTCC
Statistics
Matches: 109, Mismatches: 6, Indels: 8
0.89 0.05 0.07
Matches are distributed among these distances:
47 69 0.63
48 28 0.26
49 12 0.11
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.29
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTA
Found at i:42817231 original size:27 final size:27
Alignment explanation
Indices: 42817131--42817214 Score: 134
Period size: 27 Copynumber: 3.1 Consensus size: 27
42817121 GGGCATATTC
* *
42817131 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACCCTACAGGGGCT-TTACG
42817158 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
42817185 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
42817212 GTC
1 GTC
42817215 TTTTTACCTA
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
27 53 0.98
28 1 0.02
ACGTcount: A:0.20, C:0.26, G:0.23, T:0.31
Consensus pattern (27 bp):
GTCACTTTACCCTACAGGGGCTTTACG
Found at i:42817459 original size:81 final size:80
Alignment explanation
Indices: 42817363--42817558 Score: 268
Period size: 81 Copynumber: 2.4 Consensus size: 80
42817353 CTTTGTAAAT
42817363 CAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACC-AGTGGTATT
1 CAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAAG-GGTATT
* *
42817427 TTGGTAATTTTACAAA
65 TTAGCAATTTTACAAA
** *
42817443 CTAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTTTGTAATTTTACAAACCAAGGGTATT
1 C-AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAAGGGTATT
*
42817508 TTAGCAATTTTACAGA
65 TTAGCAATTTTACAAA
* * ** *
42817524 CAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTA
1 CAGGGGTATTTTGGTAATTTTACAAATTGAGGGTA
42817559 AAATAGTAAT
Statistics
Matches: 103, Mismatches: 11, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
80 30 0.29
81 71 0.69
82 2 0.02
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (80 bp):
CAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAAGGGTATTT
TAGCAATTTTACAAA
Found at i:42817527 original size:26 final size:27
Alignment explanation
Indices: 42817253--42817544 Score: 223
Period size: 27 Copynumber: 10.8 Consensus size: 27
42817243 TTTCATCCTA
* * * *
42817253 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTAGTAATTTTACAAAC
* **
42817280 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTAGTAATTTTACAAAC
* * *
42817307 CAATGGTATTTCTA-TAATTTTTAGAAAGT
1 CAAGGGTATTT-TAGTAA-TTTTACAAA-C
* ** *
42817336 CAAGGGTATTTCT-GTAACTTTGTAAAT
1 CAAGGGTATTT-TAGTAATTTTACAAAC
* * *
42817363 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTAGTAATTTTACAAAC
** ** *
42817390 TGAGGGTATTTCGGTAATTTCACAAAC
1 CAAGGGTATTTTAGTAATTTTACAAAC
*
42817417 C-AGTGGTATTTTGGTAATTTTACAAAC
1 CAAG-GGTATTTTAGTAATTTTACAAAC
* * * *
42817444 TAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTAGTAATTTTACAAAC
** *
42817471 TGAGGGTATTTTTGTAATTTTACAAAC
1 CAAGGGTATTTTAGTAATTTTACAAAC
* *
42817498 CAAGGGTATTTTAGCAATTTTACAGA-
1 CAAGGGTATTTTAGTAATTTTACAAAC
42817524 CAAGGGTATTTTAGTAATTTT
1 CAAGGGTATTTTAGTAATTTT
42817545 GTAAATCGAG
Statistics
Matches: 216, Mismatches: 42, Indels: 15
0.79 0.15 0.05
Matches are distributed among these distances:
26 23 0.11
27 163 0.75
28 15 0.07
29 15 0.07
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTTAGTAATTTTACAAAC
Found at i:42817565 original size:27 final size:27
Alignment explanation
Indices: 42817536--42817692 Score: 163
Period size: 27 Copynumber: 5.9 Consensus size: 27
42817526 AGGGTATTTT
* *
42817536 AGTAATTTTGTAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
42817563 AGTAATTCTATAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
42817590 AGTAATTCTATAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * * *
42817617 GGTACTTCTGTAAATTGAAGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
42817644 GGTATTTCTGTAAGTCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
42817671 GGTAATTATGT-AATCGGGGGTA
1 AGTAATTCTGTAAATCGAGGGTA
42817693 CTTTAGTAAT
Statistics
Matches: 112, Mismatches: 18, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
26 9 0.08
27 103 0.92
ACGTcount: A:0.39, C:0.09, G:0.23, T:0.29
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:42817582 original size:80 final size:81
Alignment explanation
Indices: 42817366--42817585 Score: 205
Period size: 81 Copynumber: 2.7 Consensus size: 81
42817356 TGTAAATCAG
* * ** *
42817366 GGGTATTTTGGTAATTTTACAAATTGAGGGT-ATTTCGGTAATT-TCACAAACC-AGTGGTATTT
1 GGGTATTTTAGTAATTTTACAAATCGAGGGTAAAAT-AGTAATTCT-ACAAACCAAG-GGTATTT
* * *
42817428 TGGTAATTTTACAAACTAG
63 TAGCAATTTTACAAACTAA
* * *** * *
42817447 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTTTGTAATTTTACAAACCAAGGGTATTTTAG
1 GGGTATTTTAGTAATTTTACAAATCGAGGGTAAAATAGTAATTCTACAAACCAAGGGTATTTTAG
*
42817512 CAATTTTACAGAC-AA
66 CAATTTTACAAACTAA
** * *
42817527 GGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCAAGGGTA
1 GGGTATTTTAGTAATTTTACAAATCGAGGGTAAAATAGTAATTCTACAAACCAAGGGTA
42817586 AAACAGTAAT
Statistics
Matches: 119, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
80 49 0.41
81 64 0.54
82 6 0.05
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.39
Consensus pattern (81 bp):
GGGTATTTTAGTAATTTTACAAATCGAGGGTAAAATAGTAATTCTACAAACCAAGGGTATTTTAG
CAATTTTACAAACTAA
Found at i:42819841 original size:26 final size:26
Alignment explanation
Indices: 42819792--42819842 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
42819782 TTGATAGTTT
* *
42819792 AATGTTATAATTACATGCTACTATGA
1 AATGTTATAATTAAATGATACTATGA
* *
42819818 AATGTTATAATTAAATTATGCTATG
1 AATGTTATAATTAAATGATACTATG
42819843 GCTGAATATG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.39, C:0.08, G:0.12, T:0.41
Consensus pattern (26 bp):
AATGTTATAATTAAATGATACTATGA
Found at i:42833431 original size:27 final size:27
Alignment explanation
Indices: 42833387--42833825 Score: 334
Period size: 27 Copynumber: 16.2 Consensus size: 27
42833377 TTAGTTTACC
* * *
42833387 AAATTACTAAAATGCCCTCAATTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * * *
42833414 AAATTACTAAAGTACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
*
42833441 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* * *
42833468 AAATTACCAAAATACCC-CTAGTTTATG
1 AAATTACCAAAATACCCTCGA-TTTGTA
* *
42833495 AAATTACCAAAATACCCTTGATTTGTG
1 AAATTACCAAAATACCCTCGATTTGTA
** *
42833522 AAATTACTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * * *
42833549 AAATTACAAAAATACCC-CTAATTTATG
1 AAATTACCAAAATACCCTC-GATTTGTA
** *
42833576 AAATTACTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * **
42833603 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCTCGATTTGTA
*
42833630 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* *
42833657 AAATTACCAAAATACCC-CTAATTTGTG
1 AAATTACCAAAATACCCTC-GATTTGTA
* **
42833684 AAATTACTAAAATACCCTC-AGTTTACA
1 AAATTACCAAAATACCCTCGA-TTTGTA
** *
42833711 AAATTACTGAAATACCCTCAATTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
** * *
42833738 AAATTACTGAAATACCCTCGACTTATAA
1 AAATTACCAAAATACCCTCGATTTGT-A
* *
42833766 AAATTACCAAAGTACCCAT-GATTTATA
1 AAATTACCAAAATACCC-TCGATTTGTA
* *** *
42833793 GAATTACCATTTTACCCTCGATTTATA
1 AAATTACCAAAATACCCTCGATTTGTA
42833820 AAATTA
1 AAATTA
42833826 TTGAAATACC
Statistics
Matches: 336, Mismatches: 64, Indels: 24
0.79 0.15 0.06
Matches are distributed among these distances:
26 3 0.01
27 307 0.91
28 25 0.07
29 1 0.00
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTGTA
Found at i:42833851 original size:27 final size:27
Alignment explanation
Indices: 42833821--42833960 Score: 190
Period size: 27 Copynumber: 5.2 Consensus size: 27
42833811 CGATTTATAA
*
42833821 AATTATTGAAATACCCCTGTAGGGTAG
1 AATTATTGAAATACCCTTGTAGGGTAG
*
42833848 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTATTGAAATACCCTTGTAGGGTAG
* *
42833875 AATTATCGAAATACCCTTATAGGGTAG
1 AATTATTGAAATACCCTTGTAGGGTAG
** *
42833902 AATTGCTGAAATACCCCTGTAGGGTAG
1 AATTATTGAAATACCCTTGTAGGGTAG
* * *
42833929 AATTACTGAGATACCCTTGTAGGGTAA
1 AATTATTGAAATACCCTTGTAGGGTAG
42833956 AATTA
1 AATTA
42833961 CCATTTTGCC
Statistics
Matches: 101, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 101 1.00
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.29
Consensus pattern (27 bp):
AATTATTGAAATACCCTTGTAGGGTAG
Found at i:42835669 original size:49 final size:50
Alignment explanation
Indices: 42835549--42835736 Score: 220
Period size: 50 Copynumber: 3.8 Consensus size: 50
42835539 AACACTCATT
*
42835549 TGGCCAAATATACAAGATCAAATATAATAGT-ACATATGTGCTTACCTATA
1 TGGCCGAATATACAAGATCAAATATAATA-TCACATATGTGCTTACCTATA
* * *
42835599 TGGCCGAATATGCAAGATCAAATTTACTATCACATATGT-CTTACCTATA
1 TGGCCGAATATACAAGATCAAATATAATATCACATATGTGCTTACCTATA
* * * * *
42835648 TGGCCTACTATACAAGTTCAAATATAATATCACATTTGTGCATACCT-TCA
1 TGGCCGAATATACAAGATCAAATATAATATCACATATGTGCTTACCTAT-A
* * * *
42835698 TGGCCGAATATTCAAGATCCAATACAACATCACATATGT
1 TGGCCGAATATACAAGATCAAATATAATATCACATATGT
42835737 ACATACCGAT
Statistics
Matches: 115, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
49 44 0.38
50 71 0.62
ACGTcount: A:0.37, C:0.20, G:0.12, T:0.31
Consensus pattern (50 bp):
TGGCCGAATATACAAGATCAAATATAATATCACATATGTGCTTACCTATA
Found at i:42835730 original size:99 final size:99
Alignment explanation
Indices: 42835557--42835736 Score: 249
Period size: 99 Copynumber: 1.8 Consensus size: 99
42835547 TTTGGCCAAA
*
42835557 TATACAAGATCAAATATAATAGTACATATGTGCTTACCTATATGGCCGAATATGCAAGATCAAAT
1 TATACAAGATCAAATATAATAGTACATATGTGCATACCTATATGGCCGAATATGCAAGATCAAAT
**
42835622 TTACTATCACATATGTCTTACCTATATGGCCTAC
66 CAACTATCACATATGTCTTACCTATATGGCCTAC
* * * *
42835656 TATACAAGTTCAAATATAATA-TCACATTTGTGCATACCT-TCATGGCCGAATATTCAAGATCCA
1 TATACAAGATCAAATATAATAGT-ACATATGTGCATACCTAT-ATGGCCGAATATGCAAGATCAA
42835719 ATACAAC-ATCACATATGT
64 AT-CAACTATCACATATGT
42835737 ACATACCGAT
Statistics
Matches: 71, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
98 2 0.03
99 67 0.94
100 2 0.03
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.32
Consensus pattern (99 bp):
TATACAAGATCAAATATAATAGTACATATGTGCATACCTATATGGCCGAATATGCAAGATCAAAT
CAACTATCACATATGTCTTACCTATATGGCCTAC
Found at i:42842245 original size:30 final size:30
Alignment explanation
Indices: 42842211--42842271 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
42842201 TCCTTAACTC
42842211 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
42842241 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
42842271 A
1 A
42842272 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:42848200 original size:24 final size:24
Alignment explanation
Indices: 42848168--42848214 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
42848158 TTGTTTAGCC
42848168 TCCCATGCACAGGAGCAGGCACTG
1 TCCCATGCACAGGAGCAGGCACTG
42848192 TCCCATGCACAGGAGCAGGCACT
1 TCCCATGCACAGGAGCAGGCACT
42848215 ACACTCTCGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.26, C:0.34, G:0.28, T:0.13
Consensus pattern (24 bp):
TCCCATGCACAGGAGCAGGCACTG
Found at i:42849668 original size:50 final size:50
Alignment explanation
Indices: 42849584--42849799 Score: 265
Period size: 50 Copynumber: 4.3 Consensus size: 50
42849574 ATCACTCATT
* * *
42849584 TGGCCAAATATACAAGATCAAATATAATAGCACATATGTGCTTACCTATA
1 TGGCCGAATATACAAGATCAAATATAATATCACATATGTGCATACCTATA
* * * *
42849634 TGGCTGAATATGCAAGATCAAATTTAATATCACATATGTGCTTACCTATA
1 TGGCCGAATATACAAGATCAAATATAATATCACATATGTGCATACCTATA
* *
42849684 TGGCCGAATATACAA-ATTCAAATATAATATCACATTTCTGCATACCT-TCA
1 TGGCCGAATATACAAGA-TCAAATATAATATCACATATGTGCATACCTAT-A
* * * * * *
42849734 TGGCCGAATATTCAAGATCCAATACAACATCACATATGTACATACCTATG
1 TGGCCGAATATACAAGATCAAATATAATATCACATATGTGCATACCTATA
42849784 TGGCCGAATATACAAG
1 TGGCCGAATATACAAG
42849800 GTCATTTAGC
Statistics
Matches: 142, Mismatches: 20, Indels: 8
0.84 0.12 0.05
Matches are distributed among these distances:
49 2 0.01
50 138 0.97
51 2 0.01
ACGTcount: A:0.38, C:0.20, G:0.12, T:0.29
Consensus pattern (50 bp):
TGGCCGAATATACAAGATCAAATATAATATCACATATGTGCATACCTATA
Found at i:42850721 original size:160 final size:160
Alignment explanation
Indices: 42850547--42850866 Score: 640
Period size: 160 Copynumber: 2.0 Consensus size: 160
42850537 ATATAAATAC
42850547 ACAAATTTCATTTATTTTGCATTTTAGTCCCTCAATTTATTATTTTTGCAATTTAGTCCTAATTA
1 ACAAATTTCATTTATTTTGCATTTTAGTCCCTCAATTTATTATTTTTGCAATTTAGTCCTAATTA
42850612 AATCTTTAAAAACTCCAATACAAAACATGTTAATCTAAAAGATATCTTTAATATTTCATCATCAA
66 AATCTTTAAAAACTCCAATACAAAACATGTTAATCTAAAAGATATCTTTAATATTTCATCATCAA
42850677 ACATCACAAAACACAAATATTCATCAATGG
131 ACATCACAAAACACAAATATTCATCAATGG
42850707 ACAAATTTCATTTATTTTGCATTTTAGTCCCTCAATTTATTATTTTTGCAATTTAGTCCTAATTA
1 ACAAATTTCATTTATTTTGCATTTTAGTCCCTCAATTTATTATTTTTGCAATTTAGTCCTAATTA
42850772 AATCTTTAAAAACTCCAATACAAAACATGTTAATCTAAAAGATATCTTTAATATTTCATCATCAA
66 AATCTTTAAAAACTCCAATACAAAACATGTTAATCTAAAAGATATCTTTAATATTTCATCATCAA
42850837 ACATCACAAAACACAAATATTCATCAATGG
131 ACATCACAAAACACAAATATTCATCAATGG
42850867 CATAACTCAA
Statistics
Matches: 160, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
160 160 1.00
ACGTcount: A:0.39, C:0.17, G:0.05, T:0.38
Consensus pattern (160 bp):
ACAAATTTCATTTATTTTGCATTTTAGTCCCTCAATTTATTATTTTTGCAATTTAGTCCTAATTA
AATCTTTAAAAACTCCAATACAAAACATGTTAATCTAAAAGATATCTTTAATATTTCATCATCAA
ACATCACAAAACACAAATATTCATCAATGG
Found at i:42859107 original size:40 final size:40
Alignment explanation
Indices: 42859062--42859253 Score: 226
Period size: 40 Copynumber: 4.8 Consensus size: 40
42859052 ATAACCACAA
* * *
42859062 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
*
42859102 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* * *
42859142 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* * * * *
42859182 GCATAAATGCCTTCGGGACTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* *
42859222 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
42859254 CATTCAAATG
Statistics
Matches: 142, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 1 0.01
40 137 0.96
41 4 0.03
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
Found at i:42859146 original size:80 final size:80
Alignment explanation
Indices: 42859033--42859252 Score: 248
Period size: 80 Copynumber: 2.8 Consensus size: 80
42859023 ACCCAAGTTT
* * * * * * * * *
42859033 CTTCGGAATTTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGT-ATAG
1 CTTCGGGACTTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAAG
*
42859096 CAACTCGCACAAATGC
66 C-ACTAGCACAAATGC
* * *
42859112 CTTCGGGTCTTAGCCCGGAT-ATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAA
1 CTTCGGGACTTAGCCCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAA
* *
42859176 TCACTAGCATAAATGC
65 GCACTAGCACAAATGC
* *
42859192 CTTCGGGACTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGATA
1 CTTCGGGACTTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATA
42859253 TCATTCAAAT
Statistics
Matches: 117, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
79 12 0.10
80 98 0.84
81 7 0.06
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAAG
CACTAGCACAAATGC
Found at i:42871262 original size:50 final size:50
Alignment explanation
Indices: 42871176--42871569 Score: 357
Period size: 50 Copynumber: 7.9 Consensus size: 50
42871166 ACTAAAGCTC
* *
42871176 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
1 TCTGATACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
** * * * *
42871226 TCTGATACATGTAGTAGCCTGTACTTAGTACTACACATGTGACTTAACCA
1 TCTGATACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
* * * *** *
42871276 TCTAATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATAGAAGTTAA
1 TCTGATACACATAGTAGCCTGCACTTAGTACTACACATGTGA-CCTA-TCAA
* * * * *
42871328 -CGGGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCTATCAA
1 TCTGATACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
** * * *
42871377 TCT-AGTACATGTAGTAGCCTGCACTTAGTACTACACACGTGA-CTAAACCA
1 TCTGA-TACACATAGTAGCCTGCACTTAGTACTACACATGTGACCT-ATCAA
* * ** *
42871427 TCTGATACACATAG-AGGCTACACTTAGTACTACACATGTGATCAAAGTTAA
1 TCTGATACACATAGTAGCCTGCACTTAGTACTACACATGTGA-CCTA-TCAA
* * * * * *
42871478 -CAGGTACGCATAGTATCCTGCACTTAGTATTACACATGCGACCTATCAA
1 TCTGATACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
* *
42871527 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGAC
1 TCTGATACACATAGTAGCCTGCACTTAGTACTACACATGTGAC
42871570 TCACAACGAA
Statistics
Matches: 266, Mismatches: 67, Indels: 22
0.75 0.19 0.06
Matches are distributed among these distances:
49 32 0.12
50 175 0.66
51 58 0.22
52 1 0.00
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (50 bp):
TCTGATACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
Found at i:42871365 original size:101 final size:100
Alignment explanation
Indices: 42871187--42871569 Score: 318
Period size: 101 Copynumber: 3.8 Consensus size: 100
42871177 CTGGTACGCA
* * * ** **
42871187 TAGTAGCCTGCACTTAGTACTACACATGTGACCT--ATCAATCTGATACATGTAGTAGCCTGTAC
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CTAAACCAA-CGGATACACATAGTAGCCTACAC
* *
42871250 TTAGTACTACACATGTGACTTAACCATCTAATACACG
64 TTAGTACTACACATGTGACCTAACAATCTAATACACG
** * *
42871287 TAGTAGCCTGCACTTAGTACTACACACGTGA-TAGAAGTTAACGGGTACGCATAGTAGCCTACAC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACTA-AA-CCAACGGATACACATAGTAGCCTACAC
* * * *
42871351 TTAGTACTACACATGCGACCTATCAATCTAGTACATG
64 TTAGTACTACACATGTGACCTAACAATCTAATACACG
* * *
42871388 TAGTAGCCTGCACTTAGTACTACACACGTGACTAAACCATCTGATACACATAG-AGGCTACACTT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACTAAACCAACGGATACACATAGTAGCCTACACTT
* * * *
42871452 AGTACTACACATGTGATC-AA-AGT-TAACAGGTACGCA
66 AGTACTACACATGTGACCTAACAATCT-A-A--TACACG
* * * * * *
42871488 TAGTATCCTGCACTTAGTATTACACATGCGACCT--ATCAATCTGG-TACACATAGTAGCCTGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CTAAACCAA-C-GGATACACATAGTAGCCTACA
*
42871550 CTTAGTACTACACACGTGAC
63 CTTAGTACTACACATGTGAC
42871570 TCACAACGAA
Statistics
Matches: 229, Mismatches: 41, Indels: 25
0.78 0.14 0.08
Matches are distributed among these distances:
96 1 0.00
97 3 0.01
98 2 0.01
99 29 0.13
100 81 0.35
101 108 0.47
102 5 0.02
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.27
Consensus pattern (100 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACTAAACCAACGGATACACATAGTAGCCTACACTT
AGTACTACACATGTGACCTAACAATCTAATACACG
Found at i:42871520 original size:150 final size:150
Alignment explanation
Indices: 42871179--42871570 Score: 599
Period size: 150 Copynumber: 2.6 Consensus size: 150
42871169 AAAGCTCTCT
*
42871179 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGATACATGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTG-TACATGTAGTAGC
* * * * *
42871244 CTGTACTTAGTACTACACATGTGACTTAACCATCTAATACACGTAGTAGCCTGCACTTAGTACTA
65 CTGCACTTAGTACTACACACGTGACTAAACCATCTAATACACATAGTAGCCTACACTTAGTACTA
*
42871309 CACACGTGATAGAAGTTAACG
130 CACACGTGATAGAAGTTAACA
*
42871330 GGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCTATCAATCTAGTACATGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCT-GTACATGTAGTAGC
* *
42871395 CTGCACTTAGTACTACACACGTGACTAAACCATCTGATACACATAG-AGGCTACACTTAGTACTA
65 CTGCACTTAGTACTACACACGTGACTAAACCATCTAATACACATAGTAGCCTACACTTAGTACTA
*
42871459 CACATGTGATCA-AAGTTAACA
130 CACACGTGAT-AGAAGTTAACA
* * **
42871480 GGTACGCATAGTATCCTGCACTTAGTATTACACATGCGACCTATCAATCTGGTACACATAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCT-GTACATGTAGTAGC
42871545 CTGCACTTAGTACTACACACGTGACT
65 CTGCACTTAGTACTACACACGTGACT
42871571 CACAACGAAT
Statistics
Matches: 222, Mismatches: 17, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
150 118 0.53
151 103 0.46
152 1 0.00
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (150 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGTACATGTAGTAGCC
TGCACTTAGTACTACACACGTGACTAAACCATCTAATACACATAGTAGCCTACACTTAGTACTAC
ACACGTGATAGAAGTTAACA
Found at i:42871946 original size:19 final size:19
Alignment explanation
Indices: 42871924--42871960 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
42871914 GGGTTATATC
42871924 ATCAAAATAATCACATAGT
1 ATCAAAATAATCACATAGT
* *
42871943 ATCAAATTATTCACATAG
1 ATCAAAATAATCACATAG
42871961 CATTCAAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.49, C:0.16, G:0.05, T:0.30
Consensus pattern (19 bp):
ATCAAAATAATCACATAGT
Found at i:42888442 original size:27 final size:26
Alignment explanation
Indices: 42888404--42888485 Score: 101
Period size: 27 Copynumber: 3.1 Consensus size: 26
42888394 GAAGTATTCC
42888404 GGTGGCTCTGCCACAAATATCTGTTCT
1 GGTGGCTCTGCCAC-AATATCTGTTCT
*
42888431 GGTGGCTCTGCCACAATATCTGTATTT
1 GGTGGCTCTGCCACAATATCTGT-TCT
* * * *
42888458 GGTGACGCTGTCACAATATTTGTTCT
1 GGTGGCTCTGCCACAATATCTGTTCT
42888484 GG
1 GG
42888486 CAGCCATGTT
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
26 13 0.27
27 35 0.73
ACGTcount: A:0.18, C:0.22, G:0.24, T:0.35
Consensus pattern (26 bp):
GGTGGCTCTGCCACAATATCTGTTCT
Found at i:42902400 original size:40 final size:40
Alignment explanation
Indices: 42902338--42902593 Score: 412
Period size: 40 Copynumber: 6.4 Consensus size: 40
42902328 AAACCAAGTA
* * *
42902338 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
42902377 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
42902417 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
42902457 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
42902497 CCTTCGGGACTTAGCCCGGA-ATTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
* *
42902537 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
42902577 CCTTCGGGACTTAGCCC
1 CCTTCGGGACTTAGCCC
42902594 CGTTATCATC
Statistics
Matches: 209, Mismatches: 5, Indels: 5
0.95 0.02 0.02
Matches are distributed among these distances:
39 14 0.07
40 195 0.93
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:42910487 original size:40 final size:40
Alignment explanation
Indices: 42910425--42910720 Score: 483
Period size: 40 Copynumber: 7.4 Consensus size: 40
42910415 AAACCAAGTA
* * *
42910425 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
42910464 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
42910504 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
42910544 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
42910584 CCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
42910624 CCTTCGGGACTTAGCCCGGA-ATTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
* *
42910664 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
42910704 CCTTCGGGACTTAGCCC
1 CCTTCGGGACTTAGCCC
42910721 CGTTATCATC
Statistics
Matches: 247, Mismatches: 7, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
39 13 0.05
40 234 0.95
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:42913360 original size:60 final size:60
Alignment explanation
Indices: 42913291--42913411 Score: 224
Period size: 60 Copynumber: 2.0 Consensus size: 60
42913281 CATACAAAGT
42913291 AAGCTTTCAAAAGCTTAGTAAGCCATATACAAACAAACTTATCATTTTAAGCACATAAGC
1 AAGCTTTCAAAAGCTTAGTAAGCCATATACAAACAAACTTATCATTTTAAGCACATAAGC
* *
42913351 AAGCTTTCAAAAGCTTAGTAAGCCATATACAAACAAACTTTTCATTTTAAGCATATAAGC
1 AAGCTTTCAAAAGCTTAGTAAGCCATATACAAACAAACTTATCATTTTAAGCACATAAGC
42913411 A
1 A
42913412 TCATAAAATT
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.43, C:0.19, G:0.10, T:0.28
Consensus pattern (60 bp):
AAGCTTTCAAAAGCTTAGTAAGCCATATACAAACAAACTTATCATTTTAAGCACATAAGC
Found at i:42917374 original size:20 final size:20
Alignment explanation
Indices: 42917341--42917435 Score: 124
Period size: 20 Copynumber: 4.8 Consensus size: 20
42917331 ATACATGGGA
42917341 TATGATAT--ACATGAT-TGG
1 TATGATATGCACATGATAT-G
42917359 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
* *
42917379 TATAAAATGCACATGATATG
1 TATGATATGCACATGATATG
42917399 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
* *
42917419 TATGAAATGCACGTGAT
1 TATGATATGCACATGAT
42917436 GTATTCATAA
Statistics
Matches: 68, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
18 8 0.12
20 59 0.87
21 1 0.01
ACGTcount: A:0.37, C:0.09, G:0.20, T:0.34
Consensus pattern (20 bp):
TATGATATGCACATGATATG
Found at i:42917376 original size:11 final size:11
Alignment explanation
Indices: 42917360--42917418 Score: 54
Period size: 11 Copynumber: 5.7 Consensus size: 11
42917350 CATGATTGGT
42917360 ATGATATGCAC
1 ATGATATGCAC
*
42917371 ATGATATG--T
1 ATGATATGCAC
* *
42917380 ATAAAATGCAC
1 ATGATATGCAC
*
42917391 ATGATATG--T
1 ATGATATGCAC
42917400 ATGATATGCAC
1 ATGATATGCAC
42917411 ATGATATG
1 ATGATATG
42917419 TATGAAATGC
Statistics
Matches: 36, Mismatches: 8, Indels: 8
0.69 0.15 0.15
Matches are distributed among these distances:
9 14 0.39
11 22 0.61
ACGTcount: A:0.39, C:0.10, G:0.19, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:42917393 original size:40 final size:40
Alignment explanation
Indices: 42917349--42917435 Score: 140
Period size: 40 Copynumber: 2.2 Consensus size: 40
42917339 GATATGATAT
42917349 ACATGAT-TGGTATGATATGCACATGATATGTATAAAATGC
1 ACATGATAT-GTATGATATGCACATGATATGTATAAAATGC
*
42917389 ACATGATATGTATGATATGCACATGATATGTATGAAATGC
1 ACATGATATGTATGATATGCACATGATATGTATAAAATGC
*
42917429 ACGTGAT
1 ACATGAT
42917436 GTATTCATAA
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
40 43 0.98
41 1 0.02
ACGTcount: A:0.37, C:0.10, G:0.21, T:0.32
Consensus pattern (40 bp):
ACATGATATGTATGATATGCACATGATATGTATAAAATGC
Found at i:42917515 original size:26 final size:25
Alignment explanation
Indices: 42917484--42917556 Score: 110
Period size: 26 Copynumber: 2.9 Consensus size: 25
42917474 GGAGGAAGTG
42917484 CAAAAGGGCTTATGCCCCAGTTTAC
1 CAAAAGGGCTTATGCCCCAGTTTAC
42917509 CAAAAAGGGCTTATGCCCCAGTTTAC
1 C-AAAAGGGCTTATGCCCCAGTTTAC
* * *
42917535 CGAAAGGGATTTTGCCCCAGTT
1 CAAAAGGGCTTATGCCCCAGTT
42917557 ATTAAAAGAG
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
25 19 0.43
26 25 0.57
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (25 bp):
CAAAAGGGCTTATGCCCCAGTTTAC
Found at i:42925871 original size:46 final size:48
Alignment explanation
Indices: 42925753--42925921 Score: 225
Period size: 48 Copynumber: 3.6 Consensus size: 48
42925743 TGATATGTGT
* **
42925753 GCTAGTGTAAGACATGTCTGGGACATGCATCTGCCTCAAGATATACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTTGAGATATACAA
* * * ** *
42925801 GCCAGTGTAAGACATGTCTGGGACATGCATCAACATTGAGA-CGA-GA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTTGAGATATACAA
*
42925847 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATATACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTTGAGATATACAA
*
42925895 GCTAGTGTAAGACCTGTCTGGGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
42925922 GCGTCAACTT
Statistics
Matches: 102, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
46 38 0.37
47 2 0.02
48 62 0.61
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.24
Consensus pattern (48 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTTGAGATATACAA
Found at i:42925914 original size:94 final size:93
Alignment explanation
Indices: 42925753--42926019 Score: 301
Period size: 94 Copynumber: 2.9 Consensus size: 93
42925743 TGATATGTGT
* ** * *
42925753 GCTAGTGTAAGACATGTCTGGGACATGCATCTGCCTCAAGATATACAAGCCAGTGTAAGACATGT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATATACAAGCTAGTGTAAGACCTGT
42925818 CTGGGACAT-GCATCAACATTG-AGACGAG
66 CTGGGACATGGCATCAAC-TTGTAGAC-AG
42925846 AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATATACAAGCTAGTGTAAGACCTG
1 -GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATATACAAGCTAGTGTAAGACCTG
* * * *
42925911 TCTGGGACATGGCGTCAACTTGTTGTCTG
65 TCTGGGACATGGCATCAACTTGTAGACAG
* * * * * * *
42925940 TC-AGTGTAAGACCTGTCTAGGACATGGCATCGGCATTGATAGATGA-GAGCCT-GTGTAAGACC
1 GCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCCTTGAGATAT-ACAAG-CTAGTGTAAGACC
42926002 TGTCTGGGACATGGCATC
63 TGTCTGGGACATGGCATC
42926020 GGCCTTGATA
Statistics
Matches: 151, Mismatches: 17, Indels: 11
0.84 0.09 0.06
Matches are distributed among these distances:
92 21 0.14
93 45 0.30
94 76 0.50
95 9 0.06
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (93 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATATACAAGCTAGTGTAAGACCTGT
CTGGGACATGGCATCAACTTGTAGACAG
Found at i:42926001 original size:49 final size:48
Alignment explanation
Indices: 42925804--42926073 Score: 184
Period size: 49 Copynumber: 5.7 Consensus size: 48
42925794 TATACAAGCC
* * ** * *
42925804 AGTGTAAGACATGTCTGGGACAT-GCATCAACATTG--AGACGAGAGCT
1 AGTGTAAGACCTGTCTAGGACATGGCATCGGCATTGATAGATGAAAG-T
* * * * *
42925850 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCTTGAGATAT-ACAAGCT
1 AGTGTAAGACCTGTCTAGGACATGGCATCGGCATTGATAGATGA-AAG-T
* * ** ***
42925898 AGTGTAAGACCTGTCTGGGACATGGCGTCAAC-TTG-T---TGTCTGT
1 AGTGTAAGACCTGTCTAGGACATGGCATCGGCATTGATAGATGAAAGT
*
42925941 CAGTGTAAGACCTGTCTAGGACATGGCATCGGCATTGATAGATGAGAGCCT
1 -AGTGTAAGACCTGTCTAGGACATGGCATCGGCATTGATAGATGAAAG--T
* * *
42925992 -GTGTAAGACCTGTCTGGGACATGGCATCGGCCTTGATATATGAAAGT
1 AGTGTAAGACCTGTCTAGGACATGGCATCGGCATTGATAGATGAAAGT
* *
42926039 AGTGTAAGACCATGTTTAGGACATGGCGTCGGCAT
1 AGTGTAAGACC-TGTCTAGGACATGGCATCGGCAT
42926074 CTTATCCTAT
Statistics
Matches: 180, Mismatches: 29, Indels: 27
0.76 0.12 0.11
Matches are distributed among these distances:
43 1 0.01
44 30 0.17
45 3 0.02
46 33 0.18
47 2 0.01
48 41 0.23
49 69 0.38
51 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (48 bp):
AGTGTAAGACCTGTCTAGGACATGGCATCGGCATTGATAGATGAAAGT
Found at i:42926048 original size:141 final size:139
Alignment explanation
Indices: 42925803--42926068 Score: 369
Period size: 141 Copynumber: 1.9 Consensus size: 139
42925793 ATATACAAGC
*
42925803 CAGTGTAAGACATGTCTGGGACATGCATCAACATTGAGACGAGAGCTAGTGTAAGACATGTCTGG
1 CAGTGTAAGACATGTCTAGGACATGCATCAACATTGAGACGAGAGCTAGTGTAAGACATGTCTGG
*
42925868 GACATGCATCGGCCTTGAGATATACAAGCTAGTGTAAGACC-TGTCTGGGACATGGCGTCAACTT
66 GACATGCATCGGCCTTGAGATATACAAGCTAGTGTAAGACCATGTCTAGGACATGGCGTCAACTT
42925932 GTTGTCTGT
131 GTTGTCTGT
* ** * *
42925941 CAGTGTAAGACCTGTCTAGGACATGGCATCGGCATTGATAGATGAGAGCCT-GTGTAAGACCTGT
1 CAGTGTAAGACATGTCTAGGACAT-GCATCAACATTG--AGACGAGAG-CTAGTGTAAGACATGT
* *
42926005 CTGGGACATGGCATCGGCCTTGATATATGA-AAG-TAGTGTAAGACCATGTTTAGGACATGGCGT
62 CTGGGACAT-GCATCGGCCTTGAGATAT-ACAAGCTAGTGTAAGACCATGTCTAGGACATGGCGT
42926068 C
125 C
42926069 GGCATCTTAT
Statistics
Matches: 112, Mismatches: 9, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
138 22 0.20
139 10 0.09
141 41 0.37
142 38 0.34
143 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (139 bp):
CAGTGTAAGACATGTCTAGGACATGCATCAACATTGAGACGAGAGCTAGTGTAAGACATGTCTGG
GACATGCATCGGCCTTGAGATATACAAGCTAGTGTAAGACCATGTCTAGGACATGGCGTCAACTT
GTTGTCTGT
Found at i:42930909 original size:40 final size:40
Alignment explanation
Indices: 42930849--42931032 Score: 226
Period size: 40 Copynumber: 4.6 Consensus size: 40
42930839 TATTCGAATG
* *
42930849 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
* * * * * * *
42930889 ATATCCGGACTGAGATCCGAAGACACTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGACT
* *
42930929 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
* *
42930969 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
*
42931009 AAATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
42931033 CTTGTGCGAG
Statistics
Matches: 120, Mismatches: 22, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
39 1 0.01
40 117 0.98
41 2 0.02
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
Found at i:42932722 original size:21 final size:21
Alignment explanation
Indices: 42932692--42932745 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
42932682 TCTCACGAAC
*
42932692 TCGG-ACTCAACTCAACGAGT
1 TCGGAACTCAACCCAACGAGT
42932712 TCGGAACTCAACCCAACGAGT
1 TCGGAACTCAACCCAACGAGT
42932733 TCGGAACTCAACC
1 TCGGAACTCAACC
42932746 ATCCTAGTGA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 4 0.12
21 28 0.88
ACGTcount: A:0.31, C:0.33, G:0.19, T:0.17
Consensus pattern (21 bp):
TCGGAACTCAACCCAACGAGT
Found at i:42937612 original size:496 final size:496
Alignment explanation
Indices: 42936679--42937667 Score: 1960
Period size: 496 Copynumber: 2.0 Consensus size: 496
42936669 AGAAGCATAC
42936679 CGGCTCAGTCTCAGAAACTCAGACTCATACTCAGCCACTGACTTACTCCCTTGGGCTAGGTTCAG
1 CGGCTCAGTCTCAGAAACTCAGACTCATACTCAGCCACTGACTTACTCCCTTGGGCTAGGTTCAG
42936744 AAATTCGTTTCAGCGAGAGTCCACGTAACTAGCCCCAACATACTTTTCTTTGAAGGCTGTCTTAA
66 AAATTCGTTTCAGCGAGAGTCCACGTAACTAGCCCCAACATACTTTTCTTTGAAGGCTGTCTTAA
42936809 ACAGCTCCCAAGTCACACTGTCAGCAGGAGTTCCATCTCTCACCATGAGCCACCATTGATAAGAC
131 ACAGCTCCCAAGTCACACTGTCAGCAGGAGTTCCATCTCTCACCATGAGCCACCATTGATAAGAC
42936874 TCATCCCTGAGTAACGATATGGCTCCCTTCAGCTTCTGCTCCACAGAGCAGTCTAGATCATCCAT
196 TCATCCCTGAGTAACGATATGGCTCCCTTCAGCTTCTGCTCCACAGAGCAGTCTAGATCATCCAT
42936939 AATCCGCTCTGTGGCTTCTAACCAATACTCAGCCACATTCGGAGCTACACCAGATACGTCCCTAA
261 AATCCGCTCTGTGGCTTCTAACCAATACTCAGCCACATTCGGAGCTACACCAGATACGTCCCTAA
42937004 ATATCTCTACTCCATTAGCCCGGAGCCGCTCAGAAATAGACCCCAGAATTTCGTTTCCCGTACTT
326 ATATCTCTACTCCATTAGCCCGGAGCCGCTCAGAAATAGACCCCAGAATTTCGTTTCCCGTACTT
*
42937069 GCCCCAGCAACCCTTTCCAAAACTCGGAGCATTGCCTGGGACAGAGCATCATCCCCGGCATCTCG
391 GCCCCAGCAACCCTTTCCAAAACTCGGAGCATTGCCTGGGACAGAGCATCATCCCCGGCACCTCG
42937134 ATCATGAGACTCTACCTCCATTGCCGGTGGTACCGGTGTGT
456 ATCATGAGACTCTACCTCCATTGCCGGTGGTACCGGTGTGT
42937175 CGGCTCAGTCTCAGAAACTCAGACTCATACTCAGCCACTGACTTACTCCCTTGGGCTAGGTTCAG
1 CGGCTCAGTCTCAGAAACTCAGACTCATACTCAGCCACTGACTTACTCCCTTGGGCTAGGTTCAG
42937240 AAATTCGTTTCAGCGAGAGTCCACGTAACTAGCCCCAACATACTTTTCTTTGAAGGCTGTCTTAA
66 AAATTCGTTTCAGCGAGAGTCCACGTAACTAGCCCCAACATACTTTTCTTTGAAGGCTGTCTTAA
42937305 ACAGCTCCCAAGTCACACTGTCAGCAGGAGTTCCATCTCTCACCATGAGCCACCATTGATAAGAC
131 ACAGCTCCCAAGTCACACTGTCAGCAGGAGTTCCATCTCTCACCATGAGCCACCATTGATAAGAC
42937370 TCATCCCTGAGTAACGATATGGCTCCCTTCAGCTTCTGCTCCACAGAGCAGTCTAGATCATCCAT
196 TCATCCCTGAGTAACGATATGGCTCCCTTCAGCTTCTGCTCCACAGAGCAGTCTAGATCATCCAT
42937435 AATCCGCTCTGTGGCTTCTAACCAATACTCAGCCACATTCGGAGCTACACCAGATACGTCCCTAA
261 AATCCGCTCTGTGGCTTCTAACCAATACTCAGCCACATTCGGAGCTACACCAGATACGTCCCTAA
42937500 ATATCTCTACTCCATTAGCCCGGAGCCGCTCAGAAATAGACCCCAGAATTTCGTTTCCCGTACTT
326 ATATCTCTACTCCATTAGCCCGGAGCCGCTCAGAAATAGACCCCAGAATTTCGTTTCCCGTACTT
42937565 GCCCCAGCAACCCTTTCCAAAACTCGGAGCATTGCCTGGGACAGAGCATCATCCCCGGCACCTCG
391 GCCCCAGCAACCCTTTCCAAAACTCGGAGCATTGCCTGGGACAGAGCATCATCCCCGGCACCTCG
*
42937630 ATCATGAGACTCTACCTCCGTTGCCGGTGGTACCGGTG
456 ATCATGAGACTCTACCTCCATTGCCGGTGGTACCGGTG
42937668 CATCTGCTGC
Statistics
Matches: 491, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
496 491 1.00
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.25
Consensus pattern (496 bp):
CGGCTCAGTCTCAGAAACTCAGACTCATACTCAGCCACTGACTTACTCCCTTGGGCTAGGTTCAG
AAATTCGTTTCAGCGAGAGTCCACGTAACTAGCCCCAACATACTTTTCTTTGAAGGCTGTCTTAA
ACAGCTCCCAAGTCACACTGTCAGCAGGAGTTCCATCTCTCACCATGAGCCACCATTGATAAGAC
TCATCCCTGAGTAACGATATGGCTCCCTTCAGCTTCTGCTCCACAGAGCAGTCTAGATCATCCAT
AATCCGCTCTGTGGCTTCTAACCAATACTCAGCCACATTCGGAGCTACACCAGATACGTCCCTAA
ATATCTCTACTCCATTAGCCCGGAGCCGCTCAGAAATAGACCCCAGAATTTCGTTTCCCGTACTT
GCCCCAGCAACCCTTTCCAAAACTCGGAGCATTGCCTGGGACAGAGCATCATCCCCGGCACCTCG
ATCATGAGACTCTACCTCCATTGCCGGTGGTACCGGTGTGT
Found at i:42943161 original size:29 final size:29
Alignment explanation
Indices: 42943089--42943212 Score: 151
Period size: 29 Copynumber: 4.3 Consensus size: 29
42943079 AAGTCTACAT
* * *
42943089 ACATGCATATGGCCCACTAGGCCC-AATC
1 ACATTCATACGGCCCATTAGGCCCAAATC
* **
42943117 TCATTCATATAGCCCATTAGGCCCAAATC
1 ACATTCATACGGCCCATTAGGCCCAAATC
* * * *
42943146 AAATTCGTATGTCCCATTAGGCCCAAATC
1 ACATTCATACGGCCCATTAGGCCCAAATC
42943175 ACATTCATACGGCCCATTAGGCCCAAATC
1 ACATTCATACGGCCCATTAGGCCCAAATC
42943204 ACATTCATA
1 ACATTCATA
42943213 TACATGCTTT
Statistics
Matches: 82, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
28 20 0.24
29 62 0.76
ACGTcount: A:0.31, C:0.31, G:0.13, T:0.24
Consensus pattern (29 bp):
ACATTCATACGGCCCATTAGGCCCAAATC
Found at i:42946159 original size:17 final size:18
Alignment explanation
Indices: 42946137--42946172 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
42946127 AAAATTGGGC
42946137 CGTGTGGGAC-ACACGAG
1 CGTGTGGGACTACACGAG
*
42946154 CGTGTGGGCCTACACGAG
1 CGTGTGGGACTACACGAG
42946172 C
1 C
42946173 AAGCCACATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.19, C:0.28, G:0.39, T:0.14
Consensus pattern (18 bp):
CGTGTGGGACTACACGAG
Found at i:42947490 original size:25 final size:25
Alignment explanation
Indices: 42947462--42947518 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 25
42947452 TAAGTTTAAA
42947462 CTGAAAATACTATAGATAGTATATT
1 CTGAAAATACTATAGATAGTATATT
* * * *
42947487 CTGATACTACTGTAGGTAGTATATT
1 CTGAAAATACTATAGATAGTATATT
*
42947512 GTGAAAA
1 CTGAAAA
42947519 CACTTTAGTT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.39, C:0.09, G:0.18, T:0.35
Consensus pattern (25 bp):
CTGAAAATACTATAGATAGTATATT
Found at i:42947531 original size:25 final size:25
Alignment explanation
Indices: 42947462--42947531 Score: 61
Period size: 25 Copynumber: 2.8 Consensus size: 25
42947452 TAAGTTTAAA
*
42947462 CTGAAAATACTATAGATAGTATATT
1 CTGAAAACACTATAGATAGTATATT
* * *
42947487 CTG-ATACTACTGTAGGTAGTATATT
1 CTGAAAAC-ACTATAGATAGTATATT
* * *
42947512 GTGAAAACACTTTAGTTAGT
1 CTGAAAACACTATAGATAGT
42947532 GTACCCTGAG
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
24 2 0.06
25 30 0.86
26 3 0.09
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.37
Consensus pattern (25 bp):
CTGAAAACACTATAGATAGTATATT
Found at i:42951999 original size:27 final size:27
Alignment explanation
Indices: 42951967--42952018 Score: 88
Period size: 27 Copynumber: 1.9 Consensus size: 27
42951957 GTCATACATA
42951967 TCATAGGGGTAT-ATCAGTCATTTCAGC
1 TCATAGGGGTATAAT-AGTCATTTCAGC
42951994 TCATAGGGGTATAATAGTCATTTCA
1 TCATAGGGGTATAATAGTCATTTCA
42952019 TCAAATTAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
27 22 0.92
28 2 0.08
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.35
Consensus pattern (27 bp):
TCATAGGGGTATAATAGTCATTTCAGC
Found at i:42958443 original size:9 final size:9
Alignment explanation
Indices: 42958429--42958465 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
42958419 GCAAAAGCCG
42958429 AAATGCCAA
1 AAATGCCAA
42958438 AAATGCCAA
1 AAATGCCAA
*
42958447 AAA-GCC-G
1 AAATGCCAA
42958454 AAATGCCAA
1 AAATGCCAA
42958463 AAA
1 AAA
42958466 GCTGAAAGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
7 3 0.12
8 6 0.25
9 15 0.62
ACGTcount: A:0.57, C:0.22, G:0.14, T:0.08
Consensus pattern (9 bp):
AAATGCCAA
Found at i:42958457 original size:16 final size:16
Alignment explanation
Indices: 42958438--42958472 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
42958428 GAAATGCCAA
42958438 AAATGCCAAAAAGCCG
1 AAATGCCAAAAAGCCG
*
42958454 AAATGCCAAAAAGCTG
1 AAATGCCAAAAAGCCG
42958470 AAA
1 AAA
42958473 GTTTGGCTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.54, C:0.20, G:0.17, T:0.09
Consensus pattern (16 bp):
AAATGCCAAAAAGCCG
Found at i:42958775 original size:28 final size:29
Alignment explanation
Indices: 42958665--42958779 Score: 137
Period size: 29 Copynumber: 4.0 Consensus size: 29
42958655 GTGAGCATGA
* *
42958665 ATATGAATGTGA-CTGGGCCTAACGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
42958693 ATATAAATGTGATTTGGGCCTAATTGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
42958722 ATAT-ACAGGTGATTTGGGCCTAATGGGCC
1 ATATGA-ATGTGATTTGGGCCTAATGGGCC
* *
42958751 ATATGAATATGA-TTGGGCTTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
42958779 A
1 A
42958780 GATATAGGTA
Statistics
Matches: 75, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
28 28 0.37
29 46 0.61
30 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.29
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:42963429 original size:45 final size:45
Alignment explanation
Indices: 42963262--42963433 Score: 219
Period size: 45 Copynumber: 3.9 Consensus size: 45
42963252 TTGAATTCAT
* *
42963262 TCACCGGCATT-TTGCCTGCTAGGCTCG-AAGCCCG-ATA-TCATT
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAAGCCCGAATAGT-ATC
* * *
42963304 TCACCGACATTATAGCCTGCTAGGCTCTAAAGCCCAAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAAGCCCGAATAGTATC
*
42963349 TCACCGGCATTATAGCCTGCTAGGCTCAAAAGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAAGCCCGAATAGTATC
* *
42963394 TCACCAGCATTATAGCCTGCTAGGCTC-AAGGGCCCGAATA
1 TCACCGGCATTATAGCCTGCTAGGCTCGAA-AGCCCGAATA
42963434 ATACTGTGCA
Statistics
Matches: 115, Mismatches: 10, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
42 10 0.09
43 14 0.12
44 8 0.07
45 82 0.71
46 1 0.01
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.24
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCGAAAGCCCGAATAGTATC
Found at i:42964396 original size:47 final size:46
Alignment explanation
Indices: 42964337--42964431 Score: 154
Period size: 47 Copynumber: 2.0 Consensus size: 46
42964327 AAGATTTTCT
* *
42964337 TTAACTAAGTAACTTATCTGGAAATAATAAGGGCAAATTTAACAAGC
1 TTAACTAAGTAACTTATCCGGAAATAATAAGAGC-AATTTAACAAGC
*
42964384 TTAACTAAGTAACTTATCCGGAAATATTAAGAGCAATTTAACAAGC
1 TTAACTAAGTAACTTATCCGGAAATAATAAGAGCAATTTAACAAGC
42964430 TT
1 TT
42964432 TAAATTCAAC
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
46 14 0.31
47 31 0.69
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (46 bp):
TTAACTAAGTAACTTATCCGGAAATAATAAGAGCAATTTAACAAGC
Found at i:42966112 original size:32 final size:32
Alignment explanation
Indices: 42966071--42966133 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
42966061 CCATCACAAT
* *
42966071 ATCAATTGGGCCTGGCCCATCTCAGAATCAAC
1 ATCAATTGGGCCTAGCCCATATCAGAATCAAC
*
42966103 ATCAGTTGGGCCTAGCCCATATCAGAATCAA
1 ATCAATTGGGCCTAGCCCATATCAGAATCAA
42966134 ACTCATATGA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (32 bp):
ATCAATTGGGCCTAGCCCATATCAGAATCAAC
Found at i:42966472 original size:27 final size:27
Alignment explanation
Indices: 42966437--42966503 Score: 80
Period size: 27 Copynumber: 2.5 Consensus size: 27
42966427 CGAGGGCAAA
* * *
42966437 CAGTCATTTTACCCTACAGGGGTATTT
1 CAGTAATTTTACACTACAAGGGTATTT
* *
42966464 CGGTAATTTTACATTACAAGGGTATTT
1 CAGTAATTTTACACTACAAGGGTATTT
*
42966491 TAGTAATTTTACA
1 CAGTAATTTTACA
42966504 AACCGAGGTC
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.28, C:0.15, G:0.16, T:0.40
Consensus pattern (27 bp):
CAGTAATTTTACACTACAAGGGTATTT
Found at i:42982933 original size:48 final size:49
Alignment explanation
Indices: 42982849--42983116 Score: 234
Period size: 48 Copynumber: 5.6 Consensus size: 49
42982839 GACATTTGAG
*
42982849 TGATATGAGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCA-T
1 TGATGTGAGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCACT
* * * * * *
42982897 TGATGTGTGTGCTAGTGTAAGACCATGTTTGGGACATAGTATAAGCCAC-
1 TGATGTGAGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCAG-CACT
* ** * *
42982946 -AACATGAGAGCCAAG-GTAAGACCATGTCTGGGACATGGCATCGGCA-T
1 TGATGTGAGTGCC-AGTGTAAGACCATGTCTGGGACATGGCATCAGCACT
* * *
42982993 TGATGTGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCACCT
1 TGATGTGAGTGCCAGTGTAAGACCATGTCTGGGACATGGCATC-AGCA-CT
* *
42983044 T-A--TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CT
1 TGATGTGAGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCACT
* *
42983089 CGACAAGTGA--GCCAGTGTAAGACCATGT
1 TG--ATGTGAGTGCCAGTGTAAGACCATGT
42983117 TTAGTATCGA
Statistics
Matches: 174, Mismatches: 32, Indels: 28
0.74 0.14 0.12
Matches are distributed among these distances:
45 2 0.01
47 5 0.03
48 155 0.89
49 6 0.03
50 4 0.02
51 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (49 bp):
TGATGTGAGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCACT
Found at i:42983017 original size:96 final size:96
Alignment explanation
Indices: 42982853--42983118 Score: 356
Period size: 96 Copynumber: 2.8 Consensus size: 96
42982843 TTTGAGTGAT
* *
42982853 ATGAGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTGATGTGTGTGCTAGTGTAAG
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATGTGTGTGCTAGTGTAAG
*
42982918 ACCATGTTTGGGACATAGTATA-AGCCACAAC
66 ACCATGTTTGGGACATAGCATAGA-CCACAAC
42982949 ATGAGAGCCAAG-GTAAGACCATGTCTGGGACATGGCATCGGCATTGATGTGTGTGCTAGTGTAA
1 ATGAGAGCC-AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATGTGTGTGCTAGTGTAA
* * * ***
42983013 GACCATGTCTGGGACATGGCATCGACCACCTT
65 GACCATGTTTGGGACATAGCATAGACCACAAC
* * *** * *
42983045 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGACAAGTGAGCCAGTGTAAG
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATGTGTGTGCTAGTGTAAG
42983110 ACCATGTTT
66 ACCATGTTT
42983119 AGTATCGAAA
Statistics
Matches: 150, Mismatches: 17, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
95 2 0.01
96 145 0.97
97 3 0.02
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (96 bp):
ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATGTGTGTGCTAGTGTAAG
ACCATGTTTGGGACATAGCATAGACCACAAC
Found at i:42987144 original size:27 final size:27
Alignment explanation
Indices: 42987114--42987291 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
42987104 ATATTGAGTC
* * * *
42987114 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
42987141 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
42987168 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
42987196 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
42987223 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
42987250 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
42987277 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
42987292 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:42987253 original size:82 final size:81
Alignment explanation
Indices: 42987135--42987290 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
42987125 TGCTATATAA
* *
42987135 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
42987200 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
42987217 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
42987281 CACTTAGTGC
65 CACTTAGTGC
42987291 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:43004018 original size:26 final size:26
Alignment explanation
Indices: 43003988--43004039 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
43003978 ATTTTTTTAT
43003988 GTTATTTTATGTTGTTATCATATGAA
1 GTTATTTTATGTTGTTATCATATGAA
*
43004014 GTTATTTTATGTTTTTATCATATGAA
1 GTTATTTTATGTTGTTATCATATGAA
43004040 TTGGTGACTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.27, C:0.04, G:0.13, T:0.56
Consensus pattern (26 bp):
GTTATTTTATGTTGTTATCATATGAA
Found at i:43022862 original size:16 final size:15
Alignment explanation
Indices: 43022838--43022867 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
43022828 AAATATTTTA
43022838 TTACAAATTTCACTC
1 TTACAAATTTCACTC
43022853 TTACATAATTTCACT
1 TTACA-AATTTCACT
43022868 TACTCCATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (15 bp):
TTACAAATTTCACTC
Found at i:43023197 original size:50 final size:50
Alignment explanation
Indices: 43023079--43023359 Score: 255
Period size: 50 Copynumber: 5.6 Consensus size: 50
43023069 CTGGTACGCA
* * *
43023079 TAGTAGCCTGCACTTAGTA-TACACATGTGACC-AACAAT-TCGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCT-GATACACG
* *
43023127 TAGTATCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGATACACG
* * * * *** * * *
43023177 TAGTAGCCTGGACTAAGTACTACACATGTGATCGAAGTTGTCGGGA-ACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAA-CCATC-TGATACACG
* * * *
43023228 AAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGATACACG
* * * * *
43023278 TAGTAGCCTGCACTTATTACTACACACGTGACCTAAAACCATCTTAAACACA
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCT--AACCATCTGATACACG
* *
43023330 TAGTAGCCTACACATAGTACTACACATGTG
1 TAGTAGCCTGCACTTAGTACTACACATGTG
43023360 TTCTCACAAT
Statistics
Matches: 183, Mismatches: 42, Indels: 12
0.77 0.18 0.05
Matches are distributed among these distances:
48 18 0.10
49 13 0.07
50 77 0.42
51 36 0.20
52 39 0.21
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGATACACG
Found at i:43025671 original size:15 final size:13
Alignment explanation
Indices: 43025638--43025676 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
43025628 CTTTTTGTAC
43025638 ATATATAAAATTA
1 ATATATAAAATTA
*
43025651 ATATATGAAATTA
1 ATATATAAAATTA
43025664 ATTCATATAAAAT
1 A-T-ATATAAAAT
43025677 ATTAATTGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 13 0.59
14 1 0.05
15 8 0.36
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (13 bp):
ATATATAAAATTA
Found at i:43035765 original size:33 final size:33
Alignment explanation
Indices: 43035723--43035787 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
43035713 TCACTAAATC
*
43035723 TGGAAGCAAGTAGGTGCGCTTTAAAGTTTAATT
1 TGGAAGCAAGTAGGTACGCTTTAAAGTTTAATT
43035756 TGGAAGCAAGTAGGTACGCTTTAAAGTTTAAT
1 TGGAAGCAAGTAGGTACGCTTTAAAGTTTAAT
43035788 GTGTTGGATT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.32, C:0.09, G:0.26, T:0.32
Consensus pattern (33 bp):
TGGAAGCAAGTAGGTACGCTTTAAAGTTTAATT
Found at i:43036965 original size:27 final size:26
Alignment explanation
Indices: 43036921--43036972 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
43036911 CTCGCTGCAA
*
43036921 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
43036948 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
43036973 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:43037785 original size:42 final size:41
Alignment explanation
Indices: 43037725--43038019 Score: 168
Period size: 42 Copynumber: 6.8 Consensus size: 41
43037715 TCGTAATAGC
43037725 GTGTAAGACCATGA-CTGGGACATGGCATCAATATGAGATCTT
1 GTGTAAGACCAT-ATCTGGGACATGGCATCAATATGAGAT-TT
* *
43037767 GTGTAAGACCATATCTGGGATATGGCATCAGCATCGATATAAGATCTT
1 GTGTAAGACCATATCTGGGACATGGCAT---CA---ATATGAGAT-TT
* * * *
43037815 GTGTTAGACCATATCTGGGATATGACATCAACTTCGATATGAGATTAC
1 GTGTAAGACCATATCTGGGACATGGCATC-A-----ATATGAGATT-T
* * *
43037863 GTGTAAGACCATATCTGGGATATGGCTTCGATATGAGATTT
1 GTGTAAGACCATATCTGGGACATGGCATCAATATGAGATTT
* * * * *
43037904 CATGTAAGACCGTGTCTAGG--ATGCGACATCAATATGTGATTT
1 -GTGTAAGACCATATCTGGGACATG-G-CATCAATATGAGATTT
* * * * *
43037946 CGTATAAGACCATGTCTGAGACATGGCATCGATGTGAGACTTT
1 -GTGTAAGACCATATCTGGGACATGGCATCAATATGAGA-TTT
*
43037989 GTGTAGGACCATAGT-T-GGACTATGGCATCAA
1 GTGTAAGACCATA-TCTGGGAC-ATGGCATCAA
43038020 GTAAACACGT
Statistics
Matches: 203, Mismatches: 31, Indels: 38
0.75 0.11 0.14
Matches are distributed among these distances:
40 3 0.01
41 5 0.02
42 108 0.53
43 5 0.02
44 3 0.01
45 3 0.01
46 1 0.00
47 1 0.00
48 74 0.36
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.29
Consensus pattern (41 bp):
GTGTAAGACCATATCTGGGACATGGCATCAATATGAGATTT
Found at i:43037824 original size:48 final size:48
Alignment explanation
Indices: 43037749--43037888 Score: 201
Period size: 48 Copynumber: 2.9 Consensus size: 48
43037739 CTGGGACATG
*
43037749 GCATCAATATGAGATCTTGTGTAAGACCATATCTGGGATATGGCATCA
1 GCATCGATATGAGATCTTGTGTAAGACCATATCTGGGATATGGCATCA
* * *
43037797 GCATCGATATAAGATCTTGTGTTAGACCATATCTGGGATATGACATCA
1 GCATCGATATGAGATCTTGTGTAAGACCATATCTGGGATATGGCATCA
* * *
43037845 ACTTCGATATGAGAT-TACGTGTAAGACCATATCTGGGATATGGC
1 GCATCGATATGAGATCT-TGTGTAAGACCATATCTGGGATATGGC
43037889 TTCGATATGA
Statistics
Matches: 81, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
47 1 0.01
48 80 0.99
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (48 bp):
GCATCGATATGAGATCTTGTGTAAGACCATATCTGGGATATGGCATCA
Found at i:43041697 original size:28 final size:28
Alignment explanation
Indices: 43041627--43041703 Score: 73
Period size: 28 Copynumber: 2.8 Consensus size: 28
43041617 TATAAATGTA
* * *
43041627 TATGGCACTTAGTGTGCAAAATATTAAG
1 TATGACACTTAGTGTGCGAGATATTAAG
* * * *
43041655 AATGACATTTGGTGTGCGAGATATTGAG
1 TATGACACTTAGTGTGCGAGATATTAAG
* *
43041683 TATGTCACTTAGTGTACGAGA
1 TATGACACTTAGTGTGCGAGA
43041704 CATCGAAGAT
Statistics
Matches: 37, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.31, C:0.10, G:0.26, T:0.32
Consensus pattern (28 bp):
TATGACACTTAGTGTGCGAGATATTAAG
Found at i:43053507 original size:38 final size:38
Alignment explanation
Indices: 43053456--43053612 Score: 143
Period size: 38 Copynumber: 3.9 Consensus size: 38
43053446 GGAATGAAAA
*
43053456 AACGTGGTGCTAAGTAGATATACCACGGTTATACGTGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATACGTGT
* * *
43053494 AACGTGGTGCTAAGTGGATATGCCACAGTTACATATATCGATTCATT
1 AACGTGGTGCTAAGTGGATATACCAC-GGT---TATA-CG--T--GT
* * * *
43053541 AACGTGCTGCTAAGTGGATATACCATGGTTAAACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATACGTGT
* *
43053579 AACGTGGTGGTAAGTGGATATGCCACGGTTATAC
1 AACGTGGTGCTAAGTGGATATACCACGGTTATAC
43053613 ATGTTAATTT
Statistics
Matches: 94, Mismatches: 16, Indels: 18
0.73 0.12 0.14
Matches are distributed among these distances:
38 54 0.57
39 2 0.02
40 1 0.01
42 5 0.05
43 5 0.05
45 1 0.01
46 2 0.02
47 24 0.26
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.29
Consensus pattern (38 bp):
AACGTGGTGCTAAGTGGATATACCACGGTTATACGTGT
Found at i:43053904 original size:21 final size:21
Alignment explanation
Indices: 43053878--43053919 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
43053868 ATGTGATTGA
43053878 ATTTTTGATAAGATGAATATG
1 ATTTTTGATAAGATGAATATG
43053899 ATTTTTGATAAGATGAATATG
1 ATTTTTGATAAGATGAATATG
43053920 GATAAGTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.19, T:0.43
Consensus pattern (21 bp):
ATTTTTGATAAGATGAATATG
Found at i:43070261 original size:22 final size:22
Alignment explanation
Indices: 43070236--43070280 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
43070226 AAAATTTCAC
43070236 TGTTTTGCTGTTATTTTAATAT
1 TGTTTTGCTGTTATTTTAATAT
* *
43070258 TGTTTTGTTGTTATTTTACTAT
1 TGTTTTGCTGTTATTTTAATAT
43070280 T
1 T
43070281 ATATTACTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.16, C:0.04, G:0.13, T:0.67
Consensus pattern (22 bp):
TGTTTTGCTGTTATTTTAATAT
Found at i:43070297 original size:33 final size:33
Alignment explanation
Indices: 43070246--43070348 Score: 98
Period size: 36 Copynumber: 3.0 Consensus size: 33
43070236 TGTTTTGCTG
* * *
43070246 TTATTTTAATATTGTTTTGTTGTTATTTTACTA
1 TTATATTACTATTGTTTTGTTATTATTTTACTA
* *
43070279 TTATATTACTATTGTTTTGTTTTTATTGTTTAGATA
1 TTATATTACTATTGTTTTGTTATTA-T-TTTA-CTA
* * *
43070315 TTATATAACTTTTGTTTTATTATTAATTTTACTA
1 TTATATTACTATTGTTTTGTTATT-ATTTTACTA
43070349 CTATTTTATA
Statistics
Matches: 57, Mismatches: 9, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
33 22 0.39
34 3 0.05
35 8 0.14
36 23 0.40
37 1 0.02
ACGTcount: A:0.24, C:0.04, G:0.08, T:0.64
Consensus pattern (33 bp):
TTATATTACTATTGTTTTGTTATTATTTTACTA
Found at i:43087386 original size:60 final size:60
Alignment explanation
Indices: 43087266--43087378 Score: 208
Period size: 60 Copynumber: 1.9 Consensus size: 60
43087256 CATACAAAGT
43087266 AAGCTTTCAAAAGCTTAGTAAGCCATATACAAACAAACTTATCATTTTAAGCACAGAAGC
1 AAGCTTTCAAAAGCTTAGTAAGCCATATACAAACAAACTTATCATTTTAAGCACAGAAGC
* *
43087326 AAGCTTTCAAAGGCTTAGTAAGCCATATACAAACAAACTTTTCATTTTAAGCA
1 AAGCTTTCAAAAGCTTAGTAAGCCATATACAAACAAACTTATCATTTTAAGCA
43087379 TATAAGCATC
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
60 51 1.00
ACGTcount: A:0.42, C:0.19, G:0.12, T:0.27
Consensus pattern (60 bp):
AAGCTTTCAAAAGCTTAGTAAGCCATATACAAACAAACTTATCATTTTAAGCACAGAAGC
Found at i:43101405 original size:17 final size:17
Alignment explanation
Indices: 43101383--43101424 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
43101373 GGGCTAAAAT
43101383 CGGGCCCAATAGGCTTA
1 CGGGCCCAATAGGCTTA
*
43101400 CGGGCCCAATGGGCTTA
1 CGGGCCCAATAGGCTTA
*
43101417 AGGGCCCA
1 CGGGCCCA
43101425 TTTGGGTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.21, C:0.31, G:0.33, T:0.14
Consensus pattern (17 bp):
CGGGCCCAATAGGCTTA
Found at i:43101790 original size:20 final size:20
Alignment explanation
Indices: 43101757--43101851 Score: 115
Period size: 20 Copynumber: 4.8 Consensus size: 20
43101747 ATACATGGGA
43101757 TATGATAT--ACATGAT-TGG
1 TATGATATGCACATGATAT-G
43101775 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
* * *
43101795 TATAAAATGCACATGATATA
1 TATGATATGCACATGATATG
43101815 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
* *
43101835 TATGAAATGCACGTGAT
1 TATGATATGCACATGAT
43101852 GTATTCATAA
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
18 8 0.12
20 57 0.86
21 1 0.02
ACGTcount: A:0.38, C:0.09, G:0.19, T:0.34
Consensus pattern (20 bp):
TATGATATGCACATGATATG
Done.